Introduction

MaAsLin 3 is the next generation of MaAsLin (Microbiome Multivariable Association with Linear Models).

MaAsLin3 is comprehensive R package for efficiently determining multivariable associations between clinical metadata and microbial meta-omics features. Relative to MaAsLin 2, MaAsLin 3 introduces the ability to quantify and test for both abundance and prevalence associations while accounting for compositionality. MaAsLin3 relies on general linear models to accommodate most modern epidemiological study designs, including cross-sectional and longitudinal, along with a variety of filtering, normalization, and transform methods.

If you use the MaAsLin 3 software, please cite our manuscript:

William A. Nickols, Jacob T. Nearing, Kelsey N. Thompson, Jiaxian Shen, Curtis Huttenhower MaAsLin 3: Refining and extending generalized multivariate linear models for meta-omic association discovery. (In progress).

Support

If you have questions, please direct it to: MaAsLin 3 Forum .

Contents

1. Installing R

R is a programming language specializing in statistical computing and graphics. You can use R just the same as any other programming languages, but it is most useful for statistical analyses, with well-established packages for common tasks such as linear modeling, ’omic data analysis, machine learning, and visualization. We have created a short introduction tutorial here, but we note there are many other more comprehensive tutorials out there to learn R.

Installing R for the first time

You can download and install the free R software environment here. Note that you should download the latest release - this will ensure the R version you have is compatible with MaAsLin 3.

(Optional) the RStudio IDE

RStudio is a freely available IDE (integrated development environment) for R. It is a “wrapper” around R with some additional functionalities that makes programming in R a bit easier. Feel free to download RStudio and explore its interface - but it is not required for this tutorial.

Important: the correct R version

If you already have R installed, then it is possible that the R version you have does not support MaAsLin 3. The easiest way to check this is to launch R/RStudio, and in the console (“Console” pane in RStudio), type in the following command (without the > symbol):

sessionInfo()

The first line of output message should indicate your current R version. For example:

> sessionInfo()
R version 4.4.1 (2024-06-14)

For MaAsLin 3 to install, you will need R >= 4.3. If your version is older than that, please refer to section Installing R for the first time to download the latest R. Note that RStudio users will need to have RStudio “switch” to this later version once it is installed. This should happen automatically for Windows and Mac OS users when you relaunch RStudio. For Linux users you might need to bind the correct R executable. For more information refer to here. Either way, once you have the correct version installed, launch the software and use sessionInfo() to make sure that you indeed have R >= 4.3.

2. Installing MaAsLin 3

The latest development version of MaAsLin 3 can be installed from GitHub using the devtools package.

if (!require('devtools', character.only = TRUE)) {
  install.packages('devtools')
}

library("devtools")
install_github("biobakery/MaAsLin3")
for (lib in c('maaslin3', 'dplyr', 'ggplot2', 'knitr', 'kableExtra')) {
    suppressPackageStartupMessages(require(lib, character.only = TRUE))
}

3. Microbiome association detection with MaAsLin 3

To run MaAsLin 3, a user inputs a table of per-sample feature abundances (with zeros still included), a table of per-sample metadata, and a model specifying how the metadata should relate to the feature presence/absence and abundance. MaAsLin 3 will return a table of associations including an effect size and p-value for each feature-metadatum association and a folder of visuals including a summary plot and diagnostic plots for significant associations.

3.1 MaAsLin 3 input

MaAsLin3 requires two input files.

  1. Feature abundance data frame
    • Formatted with features as columns and samples as rows.
    • The transpose of this format is also okay.
    • Possible features in this file include taxonomy or genes. These can be relative abundances or counts.
    • This can be a filepath to a tab-delimited file.
  2. Metadata data frame
    • Formatted with variables as columns and samples as rows.
    • The transpose of this format is also okay.
    • Possible metadata in this file include gender or age.
    • This can be a filepath to a tab-delimited file.

The data file can contain samples not included in the metadata file (along with the reverse case). For both cases, those samples not included in both files will be removed from the analysis. Also the samples do not need to be in the same order in the two files.

Example input files can be found in the inst/extdata folder of the MaAsLin 3 source. The files provided were generated from the HMP2 data which can be downloaded from https://ibdmdb.org/ .

# Read abundance table
taxa_table_name <- system.file("extdata", "HMP2_taxonomy.tsv", package = "maaslin3")
taxa_table <- read.csv(taxa_table_name, sep = '\t')

# Read metadata table
metadata_name <- system.file("extdata", "HMP2_metadata.tsv", package = "maaslin3")
metadata <- read.csv(metadata_name, sep = '\t')

# Factor the categorical variables to test against controls
metadata$diagnosis <- 
  factor(metadata$diagnosis, levels = c('nonIBD', 'UC', 'CD'))
metadata$dysbiosis_state <- 
  factor(metadata$dysbiosis_state, levels = c('none', 'dysbiosis_UC', 'dysbiosis_CD'))
metadata$antibiotics <- 
  factor(metadata$antibiotics, levels = c('No', 'Yes'))

taxa_table[1:5, 1:5]
##            Phocaeicola_vulgatus Faecalibacterium_prausnitzii
## CSM5FZ3N_P            0.4265226                  0.060255109
## CSM5FZ3R_P            0.5369584                  0.007396904
## CSM5FZ3T_P            0.5911821                  0.000000000
## CSM5FZ3V_P            0.2661378                  0.029680329
## CSM5FZ3X_P            0.6601039                  0.003596740
##            Bacteroides_uniformis Prevotella_copri_clade_A Bacteroides_stercoris
## CSM5FZ3N_P          0.2692411314             0.000000e+00           0.000000000
## CSM5FZ3R_P          0.2526048469             0.000000e+00           0.008390958
## CSM5FZ3T_P          0.0000000000             0.000000e+00           0.000000000
## CSM5FZ3V_P          0.4004265260             0.000000e+00           0.000000000
## CSM5FZ3X_P          0.0008804283             1.308102e-05           0.001335669
metadata[1:5, 1:5]
##            participant_id    site_name week_num    reads diagnosis
## CSM5FZ3N_P          C3001 Cedars-Sinai        0  9961743        CD
## CSM5FZ3R_P          C3001 Cedars-Sinai        2 16456391        CD
## CSM5FZ3T_P          C3002 Cedars-Sinai        0 10511448        CD
## CSM5FZ3V_P          C3001 Cedars-Sinai        6 17808965        CD
## CSM5FZ3X_P          C3002 Cedars-Sinai        2 13160893        CD

HMP2_taxonomy.tsv: is a tab-delimited file with samples as rows and species as columns. It is a subset of the taxonomy file that includes just some of the the species abundances.

HMP2_metadata.tsv: is a tab-delimited file with samples as rows and metadata as columns. It is a subset of the metadata file that includes just some of the fields.

3.2 Running MaAsLin 3

MaAsLin 3 is run by specifying a param_list that contains the abundance table (input_data), the metadata table (input_metadata), the output directory (output), and a model specification. The model specification can come from a formula or vectors of terms. In either case, variable names should not have spaces or unusual characters.

  • Formula: The formula parameter should be set to any formula that satisfies the lme4 specifications: fixed effects, interaction terms, random effects, polynomial terms, and more can all be included. In addition, group and ordered predictors (see below) can be included by including group(variable_name) and ordered(variable_name) in the formula.
  • Vectors: Alternatively, a vector of variables can be supplied to the parameters fixed_effects, random_effects, group_effects, and ordered_effects. Categorical variables should either be ordered as factors beforehand, or reference should be provided as a string of ‘variable,reference’ semi-colon delimited for multiple variables (e.g., variable_1,reference_1;variable_2,reference_2). NOTE: adding a space between the variable and level might result in the wrong reference level being used.

Because MaAsLin 3 considers prevalence associations, read depth (number of reads) should be included as a covariate if available since deeper sequencing will likely increase feature detection in a way that could spuriously correlate with metadata of interest.

Running MaAsLin 3 on HMP2 data

The following command runs MaAsLin 3 on the HMP2 data, running a multivariable regression model to test for the association between microbial species abundance and prevalence versus IBD diagnosis and dysbiosis scores while controlling for antibiotic usage, age, and the sampling depth (reads). Outputs are generated in a folder called hmp2_output under the current working directory (output = "hmp2_output").

To show one of each type of plot (see below), the maximum number of significant associations to plot has been increased with max_pngs=100. All other parameters beyond the first four are the default parameters but are still included for clarity. By default, total sum scaling with a log transformation afterwards will be used. These are almost always the recommended choices (and all MaAsLin 3 evaluations and interpretations were performed with these options), but other normalizations and transformations are allowed (see normalization and transform in the manual). Also by default, a data augmentation procedure is used to avoid linear separability in the logistic regressions. This is almost always recommended, though it can be turned off (see augment in the manual). A nominal FDR level of 0.1 determines which associations are significant, but this can also be changed (see max_significance in the manual). For the abundance coefficients, to account for compositionality in relative abundance data, significance is determined by comparing against the median coefficient for a metadatum across the features (median_comparison_abundance). Since prevalence coefficients do not have the same compositional properties, they are instead compared against 0 (median_comparison_prevalence). See the manual for a discussion of when to change these parameters. One CPU is used for fitting (cores = 1).

The abundnace and prevalence filtering parameters are not included and they are 0 by default. Different from other differential abundance tools, features should not be filtered for high or low prevalence since the prevalence modeling in MaAsLin 3 can account for high proportions of zeros.

param_list <- list(input_data = taxa_table, 
                   input_metadata = metadata, 
                   output = 'hmp2_output', 
                   formula = '~ diagnosis + dysbiosis_state + antibiotics + age + reads',
                   normalization = 'TSS', 
                   transform = 'LOG', 
                   augment = TRUE, 
                   max_significance = 0.1, 
                   median_comparison_abundance = TRUE, 
                   median_comparison_prevalence = FALSE, 
                   max_pngs = 100,
                   cores = 1)

fit_out <- maaslin3(param_list)

Median comparisons

When median_comparison_abundance or median_comparison_prevalence are on, the coefficients for a metadatum will be tested against the median coefficient for that metadatum (median across the features). Otherwise, the coefficients will be tested against 0. For abundance associations, this is designed to account for compositionality, the idea that if only one feature has a positive association with a metadatum on the absolute scale, the other features will have apparent negative associations with that metadatum on the relative scale because relative abundances must sum to 1. More generally, associations on the relative scale are not necessarily the same as the associations on the absolute scale in magnitude or sign, so testing against zero on the relative scale is not equivalent to testing against zero on absolute scale. However, the median comparison enables some inference on the absolute scale. There are two interpretations of this test for absolute abundance associations:

  1. In linear models, if two features’ associations with a particular metadatum on the log absolute scale differ by some value \(d\), the features’ associations with that metadatum on the log relative scale (total-sum scaling) will also differ by \(d\). Therefore, the test against the median can always be interpreted as a test of whether a particular association is significantly different from the typical association on the absolute scale. (Or, equivalently because of the 1-1 relation, this tests whether a particular association is significantly different from the typical association on the relative scale).
  2. Under the assumption that at least half the features are not changing on the absolute scale, the median true absolute coefficient is 0, so this can be interpreted as a test of whether the feature has a non-zero association on the absolute scale

By contrast, sparsity should be less affected by compositionality since a feature should still be present even if another increases or decreases in abundance. (However, because the read depth is finite, this might not perfectly hold.) Therefore, median_comparison_prevalence is off by default, but it can be turned on if the user is interested in testing whether a particular prevalence association is significantly different from the typical prevalence association.

In both cases, if the tested coefficient is within median_comparison_[abundance/prevalence]_threshold of the median, it will automatically receive a p-value of 1. This is based on the idea that the association might be statistically significantly different but not substantially different from the median and therefore is likely still a compositional effect.

To conclude:

  • median_comparison_abundance is TRUE by default and should be used to make inference on the absolute scale when using relative abundance data.
  • median_comparison_abundance should be FALSE when (1) testing for significant relative associations, (2) testing for absolute abundance associations under the assumption that the total absolute abundance is not changing, or (3) testing for significant absolute associations when supplying spike-in or total abundances with unscaled_abundance.
  • median_comparison_prevalence is FALSE by default since most analysis focuses on whether a prevalence association is non-zero, not whether it is significantly different from the typical prevalence association.

3.3 MaAsLin 3 output

Significant associations

The main output from MaAsLin 3 is the list of significant associations in significant_results.tsv. This lists all associations that pass MaAsLin 3’s significance threshold, ordered by increasing joint q-value. The format is:

  • Columns 1 and 2 are the feature and metadata names.
  • Columns 3 and 4 are the value of the metadata and variable name from the model.
  • Columns 5 and 6 are the fit coefficient and standard error from the model.
  • Columns 7 and 8 are the p-value and FDR corrected q-value of the individual association.
  • Column 9 species whether the association is abundance or prevalence.
  • Column 10 is the total number of data points.
  • Column 11 is the total number of non-zero data points.
  • Columns 12 and 13 are the p-value and q-value of the joint prevalence and abundance association.
feature metadata value name coef stderr pval_individual qval_individual model N N.not.zero pval_joint qval_joint
Escherichia_coli dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 3.53 0.387 0 0 abundance 1530 707 0 0
Veillonella_parvula dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 4.05 0.488 0 0 abundance 1530 547 0 0
Escherichia_coli dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.58 0.237 2.57e-11 2.92e-10 prevalence 1530 707 0 0
Veillonella_parvula dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.852 0.215 7.22e-05 0.000245 prevalence 1530 547 0 0
Phocaeicola_sartorii reads reads reads -0.24 0.148 1 1 abundance 1530 424 1.08e-43 3.82e-41
Phocaeicola_sartorii reads reads reads 1.1 0.0787 5.42e-44 5.73e-41 prevalence 1530 424 1.08e-43 3.82e-41
Faecalibacterium_prausnitzii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.18 0.309 2.91e-10 1.64e-08 abundance 1530 1370 7.09e-35 1.87e-32
Faecalibacterium_prausnitzii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.49 0.282 3.54e-35 1.87e-32 prevalence 1530 1370 7.09e-35 1.87e-32
Bacteroides_uniformis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.12 0.396 3.99e-13 3.99e-11 abundance 1530 1240 3.15e-31 6.66e-29
Bacteroides_uniformis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.91 0.249 1.58e-31 5.55e-29 prevalence 1530 1240 3.15e-31 6.66e-29
Bifidobacterium_longum age age age -0.129 0.106 1 1 abundance 1530 843 2.02e-29 3.56e-27
Bifidobacterium_longum age age age -0.672 0.0594 1.01e-29 2.67e-27 prevalence 1530 843 2.02e-29 3.56e-27
Clostridium_sp_AM49_4BH diagnosis CD diagnosisCD -0.68 0.344 0.0769 0.188 abundance 1530 344 2.22e-28 3.36e-26
Clostridium_sp_AM49_4BH diagnosis CD diagnosisCD -1.81 0.163 1.11e-28 2.35e-26 prevalence 1530 344 2.22e-28 3.36e-26
Phocaeicola_dorei reads reads reads -0.519 0.197 1 1 abundance 1530 769 5.13e-25 6.77e-23
Phocaeicola_dorei reads reads reads 0.66 0.0634 2.56e-25 4.51e-23 prevalence 1530 769 5.13e-25 6.77e-23
GGB16040_SGB9347 age age age -0.378 0.297 0.219 0.421 abundance 1530 114 5.29e-24 6.21e-22
GGB16040_SGB9347 age age age 0.96 0.0944 2.65e-24 4e-22 prevalence 1530 114 5.29e-24 6.21e-22
Firmicutes_bacterium_AF16_15 diagnosis UC diagnosisUC -0.47 0.246 0.0275 0.084 abundance 1530 827 1.35e-23 1.43e-21
Firmicutes_bacterium_AF16_15 diagnosis UC diagnosisUC -1.67 0.166 6.77e-24 8.95e-22 prevalence 1530 827 1.35e-23 1.43e-21
Eubacterium_rectale dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.602 0.386 0.321 0.557 abundance 1530 1210 4.94e-23 4.74e-21
Eubacterium_rectale dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.36 0.237 2.47e-23 2.9e-21 prevalence 1530 1210 4.94e-23 4.74e-21
Phascolarctobacterium_faecium age age age 0.186 0.104 1 1 abundance 1530 503 6.39e-23 5.63e-21
Phascolarctobacterium_faecium age age age 0.574 0.0578 3.19e-23 3.38e-21 prevalence 1530 503 6.39e-23 5.63e-21
Dysosmobacter_welbionis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.7 0.342 0.00732 0.0295 abundance 1530 1190 7.38e-23 6e-21
Dysosmobacter_welbionis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.4 0.242 3.69e-23 3.55e-21 prevalence 1530 1190 7.38e-23 6e-21
Blautia_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.03 0.474 0.00846 0.0334 abundance 1530 1120 5.31e-22 4.01e-20
Blautia_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.42 0.249 2.66e-22 2.34e-20 prevalence 1530 1120 5.31e-22 4.01e-20
Fusicatenibacter_saccharivorans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.311 0.4 0.186 0.375 abundance 1530 1120 9.03e-22 6.37e-20
Fusicatenibacter_saccharivorans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.35 0.243 4.52e-22 3.67e-20 prevalence 1530 1120 9.03e-22 6.37e-20
Prevotella_sp_885 age age age 1.28 0.566 0.0261 0.0803 abundance 1530 69 2.48e-21 1.64e-19
Prevotella_sp_885 age age age 1.13 0.118 1.24e-21 9.37e-20 prevalence 1530 69 2.48e-21 1.64e-19
Lachnospira_sp_NSJ_43 diagnosis CD diagnosisCD -0.403 0.401 0.406 0.662 abundance 1530 296 1.79e-20 1.11e-18
Lachnospira_sp_NSJ_43 diagnosis CD diagnosisCD -1.65 0.177 8.94e-21 6.3e-19 prevalence 1530 296 1.79e-20 1.11e-18
Bacteroides_ovatus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.278 0.429 0.248 0.456 abundance 1530 1180 2.18e-20 1.28e-18
Bacteroides_ovatus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.13 0.228 1.09e-20 7.21e-19 prevalence 1530 1180 2.18e-20 1.28e-18
Clostridium_sp_AM49_4BH diagnosis UC diagnosisUC 0.136 0.357 1 1 abundance 1530 344 5.02e-20 2.79e-18
Clostridium_sp_AM49_4BH diagnosis UC diagnosisUC -1.57 0.17 2.51e-20 1.56e-18 prevalence 1530 344 5.02e-20 2.79e-18
Bacteroides_faecis reads reads reads -0.841 0.177 0.00513 0.0221 abundance 1530 434 1.49e-19 7.88e-18
Bacteroides_faecis reads reads reads 0.6 0.0657 7.46e-20 4.38e-18 prevalence 1530 434 1.49e-19 7.88e-18
Phocaeicola_vulgatus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.59 0.507 3.26e-06 5.35e-05 abundance 1530 1290 1.74e-19 8.74e-18
Phocaeicola_vulgatus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.07 0.228 8.68e-20 4.83e-18 prevalence 1530 1290 1.74e-19 8.74e-18
Dysosmobacter_welbionis reads reads reads -0.207 0.0627 1 1 abundance 1530 1190 4.2e-19 2.02e-17
Dysosmobacter_welbionis reads reads reads 0.719 0.0798 2.1e-19 1.11e-17 prevalence 1530 1190 4.2e-19 2.02e-17
Roseburia_sp_AF02_12 diagnosis CD diagnosisCD 0.519 0.382 0.125 0.277 abundance 1530 363 4.87e-19 2.24e-17
Roseburia_sp_AF02_12 diagnosis CD diagnosisCD -1.38 0.154 2.44e-19 1.23e-17 prevalence 1530 363 4.87e-19 2.24e-17
Clostridiales_bacterium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.03 0.557 0.0252 0.0796 abundance 1530 985 7.12e-19 3.14e-17
Clostridiales_bacterium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.46 0.275 3.56e-19 1.71e-17 prevalence 1530 985 7.12e-19 3.14e-17
Alistipes_putredinis diagnosis UC diagnosisUC -1.4 0.225 8.37e-11 5.79e-09 abundance 1530 873 1.01e-18 4.28e-17
Alistipes_putredinis diagnosis UC diagnosisUC -1.42 0.159 5.06e-19 2.33e-17 prevalence 1530 873 1.01e-18 4.28e-17
Bacteroides_xylanisolvens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.81 0.691 0.000185 0.00145 abundance 1530 959 1.06e-18 4.3e-17
Bacteroides_xylanisolvens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.12 0.238 5.29e-19 2.33e-17 prevalence 1530 959 1.06e-18 4.3e-17
Parabacteroides_distasonis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.119 0.334 1 1 abundance 1530 1140 1.62e-18 6.33e-17
Parabacteroides_distasonis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.99 0.225 8.09e-19 3.42e-17 prevalence 1530 1140 1.62e-18 6.33e-17
Clostridium_sp_AT4 diagnosis UC diagnosisUC 0.939 0.31 0.00541 0.0231 abundance 1530 528 2.99e-18 1.13e-16
Clostridium_sp_AT4 diagnosis UC diagnosisUC 1.41 0.161 1.5e-18 6.08e-17 prevalence 1530 528 2.99e-18 1.13e-16
Gemmiger_formicilis diagnosis UC diagnosisUC 1.41 0.36 0.000217 0.00164 abundance 1530 472 3.29e-18 1.2e-16
Gemmiger_formicilis diagnosis UC diagnosisUC -1.45 0.165 1.65e-18 6.44e-17 prevalence 1530 472 3.29e-18 1.2e-16
Coprococcus_eutactus age age age -0.172 0.204 1 1 abundance 1530 177 3.81e-18 1.34e-16
Coprococcus_eutactus age age age 0.649 0.0741 1.91e-18 7.2e-17 prevalence 1530 177 3.81e-18 1.34e-16
Alistipes_SGB2313 age age age 1.01 0.302 0.00116 0.0067 abundance 1530 73 4.82e-18 1.64e-16
Alistipes_SGB2313 age age age 0.949 0.109 2.41e-18 8.78e-17 prevalence 1530 73 4.82e-18 1.64e-16
GGB1549_SGB2133 age age age 2.2 0.5 7.68e-05 0.000692 abundance 1530 46 9.43e-18 3.12e-16
Vescimonas_coprocola diagnosis CD diagnosisCD 0.426 0.23 0.0318 0.0929 abundance 1530 599 1.21e-17 3.86e-16
Vescimonas_coprocola diagnosis CD diagnosisCD -1.2 0.139 6.03e-18 2.06e-16 prevalence 1530 599 1.21e-17 3.86e-16
Clostridium_fessum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.66 0.603 0.0172 0.0575 abundance 1530 926 1.34e-17 4.17e-16
Clostridium_fessum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.66 0.309 6.71e-18 2.22e-16 prevalence 1530 926 1.34e-17 4.17e-16
Bacteroides_thetaiotaomicron dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.592 0.549 0.14 0.299 abundance 1530 1060 1.66e-17 5.02e-16
Bacteroides_thetaiotaomicron dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.06 0.239 8.31e-18 2.66e-16 prevalence 1530 1060 1.66e-17 5.02e-16
Lacrimispora_amygdalina age age age -0.331 0.0802 7.15e-05 0.000657 abundance 1530 865 3.54e-17 1.04e-15
Lacrimispora_amygdalina age age age -0.491 0.0577 1.77e-17 5.5e-16 prevalence 1530 865 3.54e-17 1.04e-15
GGB9342_SGB14306 age age age 0.804 0.0958 4.87e-17 1.35e-15 prevalence 1530 92 4.87e-17 1.39e-15
Alistipes_putredinis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.33 0.577 9.33e-08 2.71e-06 abundance 1530 873 5.18e-17 1.44e-15
Alistipes_putredinis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.34 0.276 2.59e-17 7.82e-16 prevalence 1530 873 5.18e-17 1.44e-15
Anaerostipes_hadrus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.026 0.41 1 1 abundance 1530 1130 5.89e-17 1.56e-15
Bacteroides_intestinalis age age age 0.592 0.221 0.00727 0.0295 abundance 1530 158 5.78e-17 1.56e-15
Anaerostipes_hadrus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2 0.237 2.94e-17 8.41e-16 prevalence 1530 1130 5.89e-17 1.56e-15
Bacteroides_intestinalis age age age 0.667 0.079 2.89e-17 8.41e-16 prevalence 1530 158 5.78e-17 1.56e-15
Bacteroides_cellulosilyticus age age age 0.675 0.158 1.72e-05 0.000204 abundance 1530 433 1.21e-16 3.12e-15
Bacteroides_cellulosilyticus age age age 0.483 0.0578 6.04e-17 1.64e-15 prevalence 1530 433 1.21e-16 3.12e-15
Candidatus_Cibionibacter_quicibialis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.551 0.54 0.155 0.324 abundance 1530 933 1.43e-16 3.59e-15
Candidatus_Cibionibacter_quicibialis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.09 0.25 7.14e-17 1.89e-15 prevalence 1530 933 1.43e-16 3.59e-15
Bacteroides_eggerthii reads reads reads -1.02 0.225 0.00288 0.0139 abundance 1530 409 2.79e-16 6.85e-15
Bacteroides_eggerthii reads reads reads 0.552 0.0668 1.39e-16 3.59e-15 prevalence 1530 409 2.79e-16 6.85e-15
Veillonella_dispar age age age -0.203 0.163 1 1 abundance 1530 526 4.49e-16 1.08e-14
Veillonella_dispar age age age -0.527 0.0642 2.25e-16 5.65e-15 prevalence 1530 526 4.49e-16 1.08e-14
Haemophilus_parainfluenzae age age age -0.22 0.117 1 1 abundance 1530 674 6.58e-16 1.55e-14
Haemophilus_parainfluenzae age age age -0.473 0.058 3.29e-16 8.09e-15 prevalence 1530 674 6.58e-16 1.55e-14
Faecalibacterium_prausnitzii age age age -0.442 0.0524 4.44e-16 1.33e-13 abundance 1530 1370 8.88e-16 2.04e-14
Faecalibacterium_prausnitzii age age age -0.56 0.103 5.4e-08 3.3e-07 prevalence 1530 1370 8.88e-16 2.04e-14
Bacteroides_caccae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.25 0.424 0.0157 0.0543 abundance 1530 958 1.46e-15 3.28e-14
Bacteroides_caccae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.92 0.238 7.28e-16 1.75e-14 prevalence 1530 958 1.46e-15 3.28e-14
Clostridium_sp_AF34_10BH dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.586 0.68 0.237 0.442 abundance 1530 960 1.64e-15 3.61e-14
Clostridium_sp_AF34_10BH dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.33 0.289 8.19e-16 1.92e-14 prevalence 1530 960 1.64e-15 3.61e-14
Flavonifractor_plautii reads reads reads -0.287 0.0722 1 1 abundance 1530 1220 3.2e-15 6.91e-14
Flavonifractor_plautii reads reads reads 0.611 0.0766 1.6e-15 3.68e-14 prevalence 1530 1220 3.2e-15 6.91e-14
Enterocloster_bolteae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.75 0.366 1.67e-15 3.75e-13 abundance 1530 866 3.33e-15 7.04e-14
Enterocloster_bolteae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.133 0.209 0.525 0.62 prevalence 1530 866 3.33e-15 7.04e-14
Bacteroides_ovatus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.58 0.745 0.114 0.256 abundance 1530 1180 9e-15 1.83e-13
Ruminococcus_gnavus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.52 0.341 4.44e-15 7.99e-13 abundance 1530 767 8.88e-15 1.83e-13
Bacteroides_ovatus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.97 0.379 4.5e-15 1.01e-13 prevalence 1530 1180 9e-15 1.83e-13
Ruminococcus_gnavus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.01 0.225 8.05e-06 3.44e-05 prevalence 1530 767 8.88e-15 1.83e-13
Bacteroides_xylanisolvens diagnosis UC diagnosisUC -2.51 0.326 7.22e-15 1.08e-12 abundance 1530 959 1.44e-14 2.88e-13
Bacteroides_xylanisolvens diagnosis UC diagnosisUC -0.164 0.149 0.271 0.363 prevalence 1530 959 1.44e-14 2.88e-13
Clostridium_sp_AF20_17LB diagnosis UC diagnosisUC 2.15 0.262 9.44e-15 1.14e-12 abundance 1530 654 1.89e-14 3.69e-13
Clostridium_sp_AF20_17LB diagnosis UC diagnosisUC 0.71 0.147 1.33e-06 6.63e-06 prevalence 1530 654 1.89e-14 3.69e-13
Dysosmobacter_welbionis diagnosis UC diagnosisUC 1.33 0.161 1.01e-14 1.14e-12 abundance 1530 1190 2.02e-14 3.88e-13
Dysosmobacter_welbionis diagnosis UC diagnosisUC 0.478 0.192 0.0128 0.0266 prevalence 1530 1190 2.02e-14 3.88e-13
Bifidobacterium_adolescentis diagnosis CD diagnosisCD -0.685 0.346 0.0761 0.188 abundance 1530 427 2.25e-14 4.24e-13
Bifidobacterium_adolescentis diagnosis CD diagnosisCD -1.17 0.151 1.12e-14 2.48e-13 prevalence 1530 427 2.25e-14 4.24e-13
Clostridiales_bacterium reads reads reads -0.247 0.0796 1 1 abundance 1530 985 2.7e-14 5.01e-13
Clostridiales_bacterium reads reads reads 0.508 0.066 1.35e-14 2.91e-13 prevalence 1530 985 2.7e-14 5.01e-13
GGB1543_SGB2126 age age age -0.554 0.693 0.438 0.702 abundance 1530 42 2.81e-14 5.12e-13
GGB9713_SGB15249 diagnosis UC diagnosisUC -0.385 0.436 0.294 0.519 abundance 1530 329 3.15e-14 5.65e-13
GGB9713_SGB15249 diagnosis UC diagnosisUC -1.44 0.187 1.58e-14 3.27e-13 prevalence 1530 329 3.15e-14 5.65e-13
Clostridium_symbiosum diagnosis UC diagnosisUC -0.719 0.346 0.0227 0.0723 abundance 1530 539 4.2e-14 7.28e-13
Clostridium_symbiosum diagnosis UC diagnosisUC 1.25 0.163 2.1e-14 4.27e-13 prevalence 1530 539 4.2e-14 7.28e-13
Alistipes_onderdonkii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.01 0.675 3.95e-05 0.000404 abundance 1530 831 4.73e-14 8.06e-13
Alistipes_onderdonkii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.08 0.272 2.36e-14 4.71e-13 prevalence 1530 831 4.73e-14 8.06e-13
Odoribacter_splanchnicus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.07 0.395 0.0304 0.0902 abundance 1530 757 5.69e-14 9.55e-13
Odoribacter_splanchnicus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.96 0.257 2.85e-14 5.57e-13 prevalence 1530 757 5.69e-14 9.55e-13
Veillonella_parvula age age age 0.17 0.159 1 1 abundance 1530 547 1.04e-13 1.72e-12
Veillonella_parvula age age age -0.463 0.0615 5.2e-14 9.82e-13 prevalence 1530 547 1.04e-13 1.72e-12
Vescimonas_coprocola diagnosis UC diagnosisUC -0.0765 0.256 1 1 abundance 1530 599 1.11e-13 1.81e-12
Vescimonas_coprocola diagnosis UC diagnosisUC -1.12 0.149 5.55e-14 1.03e-12 prevalence 1530 599 1.11e-13 1.81e-12
Lachnospira_sp_NSJ_43 age age age 0.837 0.139 3.57e-09 1.46e-07 abundance 1530 296 1.17e-13 1.87e-12
Lachnospira_sp_NSJ_43 age age age 0.486 0.0646 5.83e-14 1.06e-12 prevalence 1530 296 1.17e-13 1.87e-12
Odoribacter_splanchnicus diagnosis UC diagnosisUC -0.72 0.187 2.58e-05 0.000283 abundance 1530 757 1.61e-13 2.55e-12
Odoribacter_splanchnicus diagnosis UC diagnosisUC -1.11 0.149 8.07e-14 1.45e-12 prevalence 1530 757 1.61e-13 2.55e-12
Blautia_wexlerae reads reads reads -0.497 0.0687 1 1 abundance 1530 1300 1.68e-13 2.62e-12
Blautia_wexlerae reads reads reads 0.657 0.0881 8.42e-14 1.48e-12 prevalence 1530 1300 1.68e-13 2.62e-12
Blautia_faecis reads reads reads -0.558 0.0751 1 1 abundance 1530 1120 1.73e-13 2.65e-12
Blautia_faecis reads reads reads 0.528 0.0708 8.64e-14 1.5e-12 prevalence 1530 1120 1.73e-13 2.65e-12
Roseburia_sp_AF02_12 diagnosis UC diagnosisUC 0.598 0.412 0.203 0.397 abundance 1530 363 2.39e-13 3.61e-12
Roseburia_sp_AF02_12 diagnosis UC diagnosisUC -1.22 0.165 1.2e-13 2.04e-12 prevalence 1530 363 2.39e-13 3.61e-12
Coprococcus_comes dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.42 0.684 0.00133 0.0076 abundance 1530 759 3.01e-13 4.49e-12
Coprococcus_comes dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.52 0.341 1.51e-13 2.53e-12 prevalence 1530 759 3.01e-13 4.49e-12
Firmicutes_bacterium_AF16_15 diagnosis CD diagnosisCD 0.0485 0.207 1 1 abundance 1530 827 3.38e-13 4.96e-12
Firmicutes_bacterium_AF16_15 diagnosis CD diagnosisCD -1.16 0.158 1.69e-13 2.79e-12 prevalence 1530 827 3.38e-13 4.96e-12
Dialister_invisus age age age 0.192 0.0944 1 1 abundance 1530 726 4.47e-13 6.48e-12
Dialister_invisus age age age -0.416 0.0567 2.24e-13 3.64e-12 prevalence 1530 726 4.47e-13 6.48e-12
Bilophila_wadsworthia dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.19 0.596 0.105 0.242 abundance 1530 764 4.72e-13 6.75e-12
Bilophila_wadsworthia dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.15 0.293 2.36e-13 3.78e-12 prevalence 1530 764 4.72e-13 6.75e-12
Faecalibacterium_SGB15346 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.39 0.848 0.000198 0.00151 abundance 1530 743 7.55e-13 1.06e-11
Faecalibacterium_SGB15346 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.47 0.341 3.78e-13 5.96e-12 prevalence 1530 743 7.55e-13 1.06e-11
Alistipes_shahii diagnosis UC diagnosisUC -0.547 0.21 0.00329 0.0154 abundance 1530 673 8.2e-13 1.14e-11
Alistipes_shahii diagnosis UC diagnosisUC -1.08 0.149 4.1e-13 6.38e-12 prevalence 1530 673 8.2e-13 1.14e-11
Bacteroides_eggerthii diagnosis CD diagnosisCD -1.86 0.573 0.00188 0.00989 abundance 1530 409 1.06e-12 1.45e-11
Bacteroides_eggerthii diagnosis CD diagnosisCD -1.09 0.152 5.28e-13 8.08e-12 prevalence 1530 409 1.06e-12 1.45e-11
Parabacteroides_distasonis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.576 0.667 0.142 0.302 abundance 1530 1140 1.09e-12 1.47e-11
Parabacteroides_distasonis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.88 0.4 5.43e-13 8.19e-12 prevalence 1530 1140 1.09e-12 1.47e-11
Clostridium_symbiosum age age age -0.478 0.146 0.00144 0.00812 abundance 1530 539 1.18e-12 1.58e-11
Clostridium_symbiosum age age age -0.459 0.0637 5.89e-13 8.78e-12 prevalence 1530 539 1.18e-12 1.58e-11
Alistipes_onderdonkii diagnosis UC diagnosisUC -1.05 0.265 2.27e-05 0.000255 abundance 1530 831 1.3e-12 1.71e-11
Alistipes_onderdonkii diagnosis UC diagnosisUC -1.09 0.152 6.49e-13 9.52e-12 prevalence 1530 831 1.3e-12 1.71e-11
Sutterella_wadsworthensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.64 0.391 9.57e-13 8.61e-11 abundance 1530 536 1.91e-12 2.5e-11
Sutterella_wadsworthensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.687 0.241 0.00433 0.00995 prevalence 1530 536 1.91e-12 2.5e-11
Blautia_wexlerae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.956 0.324 0.000296 0.00207 abundance 1530 1300 2.21e-12 2.85e-11
Blautia_wexlerae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.66 0.234 1.11e-12 1.6e-11 prevalence 1530 1300 2.21e-12 2.85e-11
Alistipes_communis age age age 0.321 0.105 0.00178 0.00942 abundance 1530 407 2.56e-12 3.26e-11
Alistipes_communis age age age 0.423 0.0596 1.28e-12 1.83e-11 prevalence 1530 407 2.56e-12 3.26e-11
Ruminococcus_lactaris diagnosis CD diagnosisCD -0.82 0.325 0.0214 0.0688 abundance 1530 379 3.48e-12 4.38e-11
Ruminococcus_lactaris diagnosis CD diagnosisCD -1.1 0.156 1.74e-12 2.46e-11 prevalence 1530 379 3.48e-12 4.38e-11
Parabacteroides_merdae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.56 0.51 5.11e-06 7.92e-05 abundance 1530 826 3.66e-12 4.55e-11
Parabacteroides_merdae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.87 0.266 1.83e-12 2.54e-11 prevalence 1530 826 3.66e-12 4.55e-11
GGB9713_SGB15249 age age age -0.15 0.138 1 1 abundance 1530 329 3.71e-12 4.57e-11
GGB9713_SGB15249 age age age 0.438 0.0622 1.86e-12 2.55e-11 prevalence 1530 329 3.71e-12 4.57e-11
Eubacterium_rectale antibiotics Yes antibioticsYes -0.368 0.273 0.28 0.501 abundance 1530 1210 5.32e-12 6.46e-11
Eubacterium_rectale antibiotics Yes antibioticsYes -1.41 0.201 2.66e-12 3.6e-11 prevalence 1530 1210 5.32e-12 6.46e-11
Blautia_obeum reads reads reads -0.342 0.089 1 1 abundance 1530 899 5.65e-12 6.79e-11
Blautia_obeum reads reads reads 0.417 0.0597 2.83e-12 3.78e-11 prevalence 1530 899 5.65e-12 6.79e-11
Clostridiaceae_bacterium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.106 0.357 1 1 abundance 1530 1110 6.6e-12 7.84e-11
Clostridiaceae_bacterium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.55 0.223 3.3e-12 4.36e-11 prevalence 1530 1110 6.6e-12 7.84e-11
Akkermansia_muciniphila age age age 0.292 0.141 0.0323 0.094 abundance 1530 407 7.32e-12 8.6e-11
Akkermansia_muciniphila age age age 0.403 0.058 3.66e-12 4.78e-11 prevalence 1530 407 7.32e-12 8.6e-11
Ruthenibacterium_lactatiformans reads reads reads -0.767 0.101 2.93e-05 0.000318 abundance 1530 797 7.86e-12 9.13e-11
Ruthenibacterium_lactatiformans reads reads reads 0.404 0.0582 3.93e-12 5.07e-11 prevalence 1530 797 7.86e-12 9.13e-11
Clostridium_sp_1001270H_150608_G6 diagnosis UC diagnosisUC -3.08 0.754 5.22e-05 0.000516 abundance 1530 141 9.16e-12 1.05e-10
Clostridium_sp_1001270H_150608_G6 diagnosis UC diagnosisUC -2.02 0.292 4.58e-12 5.83e-11 prevalence 1530 141 9.16e-12 1.05e-10
Firmicutes_bacterium_AF16_15 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.63 0.725 0.000922 0.00549 abundance 1530 827 1.4e-11 1.59e-10
Firmicutes_bacterium_AF16_15 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.12 0.309 6.99e-12 8.8e-11 prevalence 1530 827 1.4e-11 1.59e-10
Klebsiella_pneumoniae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 3.69 0.654 2.8e-08 8.99e-07 abundance 1530 119 1.43e-11 1.6e-10
Klebsiella_pneumoniae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.81 0.264 7.13e-12 8.87e-11 prevalence 1530 119 1.43e-11 1.6e-10
Bacteroides_stercoris dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.45 0.744 1.54e-05 0.000192 abundance 1530 826 1.66e-11 1.84e-10
Bacteroides_stercoris dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.82 0.266 8.28e-12 1.02e-10 prevalence 1530 826 1.66e-11 1.84e-10
Gemmiger_formicilis diagnosis CD diagnosisCD -0.469 0.252 0.113 0.256 abundance 1530 472 2.33e-11 2.57e-10
Gemmiger_formicilis diagnosis CD diagnosisCD -0.948 0.14 1.17e-11 1.42e-10 prevalence 1530 472 2.33e-11 2.57e-10
Eubacterium_rectale dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.23 0.708 0.243 0.451 abundance 1530 1210 2.53e-11 2.75e-10
Eubacterium_rectale dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.59 0.383 1.26e-11 1.52e-10 prevalence 1530 1210 2.53e-11 2.75e-10
Lacrimispora_celerecrescens diagnosis UC diagnosisUC 1.47 0.203 1.31e-11 9.92e-10 abundance 1530 756 2.61e-11 2.82e-10
Lacrimispora_celerecrescens diagnosis UC diagnosisUC 0.0908 0.146 0.535 0.629 prevalence 1530 756 2.61e-11 2.82e-10
Blautia_obeum diagnosis UC diagnosisUC 1.62 0.225 1.32e-11 9.92e-10 abundance 1530 899 2.64e-11 2.82e-10
Blautia_obeum diagnosis UC diagnosisUC 0.387 0.151 0.0106 0.0224 prevalence 1530 899 2.64e-11 2.82e-10
Clostridiaceae_bacterium reads reads reads -0.304 0.071 1 1 abundance 1530 1110 2.73e-11 2.88e-10
Clostridiaceae_bacterium reads reads reads 0.46 0.068 1.36e-11 1.62e-10 prevalence 1530 1110 2.73e-11 2.88e-10
Clostridium_sp_AF34_10BH reads reads reads -0.253 0.0925 1 1 abundance 1530 960 2.91e-11 3.05e-10
Clostridium_sp_AF34_10BH reads reads reads 0.433 0.0641 1.46e-11 1.71e-10 prevalence 1530 960 2.91e-11 3.05e-10
Oscillibacter_sp_ER4 age age age -0.0811 0.0963 1 1 abundance 1530 458 3.51e-11 3.64e-10
Oscillibacter_sp_ER4 age age age 0.385 0.0572 1.76e-11 2.04e-10 prevalence 1530 458 3.51e-11 3.64e-10
Dorea_longicatena dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.464 0.375 0.0695 0.176 abundance 1530 1020 3.6e-11 3.7e-10
Dorea_longicatena dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.51 0.224 1.8e-11 2.07e-10 prevalence 1530 1020 3.6e-11 3.7e-10
Ruminococcus_bicirculans diagnosis CD diagnosisCD 0.127 0.24 1 1 abundance 1530 678 8.04e-11 8.17e-10
Ruminococcus_bicirculans diagnosis CD diagnosisCD -0.903 0.137 4.02e-11 4.52e-10 prevalence 1530 678 8.04e-11 8.17e-10
Lachnospira_sp_NSJ_43 diagnosis UC diagnosisUC -0.786 0.383 0.0256 0.0798 abundance 1530 296 8.59e-11 8.65e-10
Lachnospira_sp_NSJ_43 diagnosis UC diagnosisUC -1.13 0.171 4.3e-11 4.78e-10 prevalence 1530 296 8.59e-11 8.65e-10
Enterocloster_bolteae diagnosis UC diagnosisUC -0.136 0.271 1 1 abundance 1530 866 1.03e-10 1.02e-09
Enterocloster_bolteae diagnosis UC diagnosisUC 0.975 0.149 5.13e-11 5.65e-10 prevalence 1530 866 1.03e-10 1.02e-09
Anaerostipes_hadrus antibiotics Yes antibioticsYes -0.209 0.29 1 1 abundance 1530 1130 1.04e-10 1.03e-09
Anaerostipes_hadrus antibiotics Yes antibioticsYes -1.28 0.194 5.2e-11 5.67e-10 prevalence 1530 1130 1.04e-10 1.03e-09
Alistipes_shahii diagnosis CD diagnosisCD -0.171 0.186 1 1 abundance 1530 673 1.1e-10 1.08e-09
Alistipes_shahii diagnosis CD diagnosisCD -0.898 0.137 5.52e-11 5.95e-10 prevalence 1530 673 1.1e-10 1.08e-09
Clostridium_sp_1001270H_150608_G6 diagnosis CD diagnosisCD 0.873 0.531 0.0784 0.191 abundance 1530 141 1.12e-10 1.09e-09
Clostridium_sp_1001270H_150608_G6 diagnosis CD diagnosisCD -1.42 0.216 5.6e-11 5.98e-10 prevalence 1530 141 1.12e-10 1.09e-09
Firmicutes_bacterium_AF16_15 age age age -0.435 0.0948 8.79e-06 0.000122 abundance 1530 827 1.2e-10 1.15e-09
Firmicutes_bacterium_AF16_15 age age age -0.395 0.0604 6e-11 6.34e-10 prevalence 1530 827 1.2e-10 1.15e-09
Roseburia_hominis diagnosis UC diagnosisUC 0.0713 0.231 1 1 abundance 1530 876 1.39e-10 1.33e-09
Roseburia_hominis diagnosis UC diagnosisUC -1.03 0.158 6.97e-11 7.29e-10 prevalence 1530 876 1.39e-10 1.33e-09
Flavonifractor_plautii age age age 0.0302 0.0736 1 1 abundance 1530 1220 1.42e-10 1.34e-09
Flavonifractor_plautii age age age -0.419 0.0642 7.08e-11 7.33e-10 prevalence 1530 1220 1.42e-10 1.34e-09
Alistipes_finegoldii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.73 0.85 0.00318 0.0152 abundance 1530 639 1.77e-10 1.66e-09
Alistipes_finegoldii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.29 0.354 8.87e-11 9.1e-10 prevalence 1530 639 1.77e-10 1.66e-09
Enterocloster_bolteae diagnosis CD diagnosisCD 0.635 0.253 0.00556 0.0236 abundance 1530 866 1.95e-10 1.81e-09
Enterocloster_bolteae diagnosis CD diagnosisCD 0.881 0.136 9.73e-11 9.89e-10 prevalence 1530 866 1.95e-10 1.81e-09
Collinsella_SGB14861 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.738 0.817 0.525 0.816 abundance 1530 593 2.07e-10 1.91e-09
Collinsella_SGB14861 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.29 0.354 1.04e-10 1.04e-09 prevalence 1530 593 2.07e-10 1.91e-09
Blautia_obeum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.573 0.5 0.114 0.256 abundance 1530 899 2.33e-10 2.13e-09
Blautia_obeum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.53 0.237 1.17e-10 1.16e-09 prevalence 1530 899 2.33e-10 2.13e-09
Alistipes_dispar age age age 0.834 0.269 0.00239 0.0121 abundance 1530 83 2.46e-10 2.21e-09
Alistipes_finegoldii diagnosis UC diagnosisUC -0.821 0.282 0.0016 0.00875 abundance 1530 639 2.48e-10 2.21e-09
Clostridium_fessum reads reads reads -0.381 0.0782 1 1 abundance 1530 926 2.48e-10 2.21e-09
Alistipes_dispar age age age 0.647 0.101 1.23e-10 1.2e-09 prevalence 1530 83 2.46e-10 2.21e-09
Alistipes_finegoldii diagnosis UC diagnosisUC -0.952 0.148 1.24e-10 1.2e-09 prevalence 1530 639 2.48e-10 2.21e-09
Clostridium_fessum reads reads reads 0.405 0.0629 1.24e-10 1.2e-09 prevalence 1530 926 2.48e-10 2.21e-09
Bacteroides_fragilis diagnosis CD diagnosisCD 1.75 0.28 1.52e-10 9.75e-09 abundance 1530 787 3.03e-10 2.67e-09
Bacteroides_fragilis diagnosis CD diagnosisCD 0.818 0.136 1.6e-09 1.24e-08 prevalence 1530 787 3.03e-10 2.67e-09
Ruminococcus_gnavus age age age -0.456 0.117 0.000161 0.0013 abundance 1530 767 3.17e-10 2.77e-09
Ruminococcus_gnavus age age age -0.356 0.0557 1.59e-10 1.52e-09 prevalence 1530 767 3.17e-10 2.77e-09
GGB33469_SGB15236 diagnosis UC diagnosisUC 0.603 0.417 0.204 0.398 abundance 1530 293 3.57e-10 3.09e-09
GGB33469_SGB15236 diagnosis UC diagnosisUC -1.18 0.186 1.78e-10 1.7e-09 prevalence 1530 293 3.57e-10 3.09e-09
GGB3175_SGB4191 diagnosis UC diagnosisUC 0.35 0.846 0.743 1 abundance 1530 154 4.27e-10 3.67e-09
GGB3175_SGB4191 diagnosis UC diagnosisUC -1.86 0.293 2.14e-10 2.02e-09 prevalence 1530 154 4.27e-10 3.67e-09
Roseburia_inulinivorans antibiotics Yes antibioticsYes -0.661 0.398 0.139 0.298 abundance 1530 951 4.41e-10 3.76e-09
Roseburia_inulinivorans antibiotics Yes antibioticsYes -1.26 0.199 2.2e-10 2.06e-09 prevalence 1530 951 4.41e-10 3.76e-09
Clostridium_symbiosum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.67 0.447 2.46e-10 1.48e-08 abundance 1530 539 4.92e-10 4.11e-09
GGB9453_SGB14844 age age age 0.132 0.175 1 1 abundance 1530 222 4.88e-10 4.11e-09
Lacrimispora_celerecrescens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.707 0.655 0.158 0.33 abundance 1530 756 4.94e-10 4.11e-09
Clostridium_symbiosum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.185 0.216 0.393 0.491 prevalence 1530 539 4.92e-10 4.11e-09
GGB9453_SGB14844 age age age 0.431 0.0681 2.44e-10 2.26e-09 prevalence 1530 222 4.88e-10 4.11e-09
Lacrimispora_celerecrescens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.07 0.327 2.47e-10 2.27e-09 prevalence 1530 756 4.94e-10 4.11e-09
Clostridium_sp_AM22_11AC reads reads reads -0.351 0.1 1 1 abundance 1530 730 7.24e-10 5.98e-09
Clostridium_sp_AM22_11AC reads reads reads 0.362 0.0577 3.62e-10 3.3e-09 prevalence 1530 730 7.24e-10 5.98e-09
Bilophila_wadsworthia reads reads reads -0.285 0.0852 1 1 abundance 1530 764 8.37e-10 6.86e-09
Bilophila_wadsworthia reads reads reads 0.374 0.0599 4.19e-10 3.78e-09 prevalence 1530 764 8.37e-10 6.86e-09
Dialister_invisus antibiotics Yes antibioticsYes -0.981 0.406 0.0255 0.0798 abundance 1530 726 8.73e-10 7.1e-09
Dialister_invisus antibiotics Yes antibioticsYes -1.3 0.208 4.37e-10 3.91e-09 prevalence 1530 726 8.73e-10 7.1e-09
Dysosmobacter_welbionis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.37 0.557 1 1 abundance 1530 1190 9e-10 7.27e-09
Dysosmobacter_welbionis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.35 0.378 4.5e-10 4e-09 prevalence 1530 1190 9e-10 7.27e-09
Ruminococcus_bromii diagnosis UC diagnosisUC -0.111 0.334 1 1 abundance 1530 429 9.24e-10 7.4e-09
Ruminococcus_bromii diagnosis UC diagnosisUC -1 0.161 4.62e-10 4.07e-09 prevalence 1530 429 9.24e-10 7.4e-09
Bacteroides_fragilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.79 0.478 4.87e-10 2.58e-08 abundance 1530 787 9.73e-10 7.74e-09
Bacteroides_fragilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.875 0.213 4.09e-05 0.000148 prevalence 1530 787 9.73e-10 7.74e-09
Clostridium_sp_AM22_11AC dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.3 0.698 0.123 0.272 abundance 1530 730 1.04e-09 8.24e-09
Clostridium_sp_AM22_11AC dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.91 0.307 5.22e-10 4.56e-09 prevalence 1530 730 1.04e-09 8.24e-09
Eubacterium_siraeum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.15 1.35 0.0309 0.0913 abundance 1530 565 1.19e-09 9.35e-09
Eubacterium_siraeum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.64 0.426 5.97e-10 5.17e-09 prevalence 1530 565 1.19e-09 9.35e-09
Bacteroides_thetaiotaomicron age age age 0.529 0.0902 2.93e-09 1.3e-07 abundance 1530 1060 1.44e-09 1.11e-08
Faecalibacterium_prausnitzii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.0662 0.36 0.349 0.588 abundance 1530 1370 1.43e-09 1.11e-08
Bacteroides_thetaiotaomicron age age age 0.423 0.0687 7.21e-10 6.15e-09 prevalence 1530 1060 1.44e-09 1.11e-08
Faecalibacterium_prausnitzii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.83 0.46 7.17e-10 6.15e-09 prevalence 1530 1370 1.43e-09 1.11e-08
Lacrimispora_amygdalina dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.86 0.491 2.49e-05 0.000277 abundance 1530 865 1.55e-09 1.19e-08
Lacrimispora_amygdalina dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.63 0.264 7.76e-10 6.56e-09 prevalence 1530 865 1.55e-09 1.19e-08
Phocaeicola_vulgatus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.22 0.746 0.000443 0.00293 abundance 1530 1290 1.6e-09 1.22e-08
Phocaeicola_vulgatus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.25 0.366 8.01e-10 6.72e-09 prevalence 1530 1290 1.6e-09 1.22e-08
Prevotella_copri_clade_A reads reads reads -0.427 0.254 1 1 abundance 1530 289 1.82e-09 1.38e-08
Prevotella_copri_clade_A reads reads reads 0.421 0.0687 9.11e-10 7.58e-09 prevalence 1530 289 1.82e-09 1.38e-08
Oscillospiraceae_bacterium age age age 0.227 0.264 0.37 0.617 abundance 1530 81 1.87e-09 1.4e-08
Oscillospiraceae_bacterium age age age 0.615 0.1 9.33e-10 7.71e-09 prevalence 1530 81 1.87e-09 1.4e-08
Alistipes_shahii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.21 0.693 1.8e-05 0.000211 abundance 1530 673 2.12e-09 1.58e-08
Alistipes_shahii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.16 0.355 1.06e-09 8.68e-09 prevalence 1530 673 2.12e-09 1.58e-08
Roseburia_hominis reads reads reads -0.421 0.098 1 1 abundance 1530 876 2.21e-09 1.63e-08
Roseburia_hominis reads reads reads 0.363 0.0595 1.11e-09 8.98e-09 prevalence 1530 876 2.21e-09 1.63e-08
Clostridium_fessum diagnosis UC diagnosisUC 0.0143 0.189 1 1 abundance 1530 926 2.51e-09 1.84e-08
Clostridium_fessum diagnosis UC diagnosisUC -0.968 0.159 1.25e-09 1.01e-08 prevalence 1530 926 2.51e-09 1.84e-08
Ruminococcus_torques reads reads reads -0.544 0.0767 1 1 abundance 1530 1090 2.54e-09 1.85e-08
Ruminococcus_torques reads reads reads 0.39 0.0643 1.27e-09 1.02e-08 prevalence 1530 1090 2.54e-09 1.85e-08
Clostridium_sp_AF20_17LB dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.727 1 0.347 0.587 abundance 1530 654 2.73e-09 1.98e-08
Clostridium_sp_AF20_17LB dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.55 0.421 1.37e-09 1.09e-08 prevalence 1530 654 2.73e-09 1.98e-08
GGB33469_SGB15236 age age age 0.366 0.152 0.0137 0.049 abundance 1530 293 2.92e-09 2.1e-08
GGB33469_SGB15236 age age age 0.382 0.0632 1.46e-09 1.15e-08 prevalence 1530 293 2.92e-09 2.1e-08
Coprococcus_eutactus diagnosis CD diagnosisCD -0.7 0.532 0.237 0.442 abundance 1530 177 3.01e-09 2.15e-08
Coprococcus_eutactus diagnosis CD diagnosisCD -1.35 0.224 1.5e-09 1.18e-08 prevalence 1530 177 3.01e-09 2.15e-08
Bacteroides_finegoldii diagnosis CD diagnosisCD -1.85 0.476 0.000218 0.00164 abundance 1530 333 3.29e-09 2.33e-08
Bacteroides_finegoldii diagnosis CD diagnosisCD -0.98 0.162 1.65e-09 1.27e-08 prevalence 1530 333 3.29e-09 2.33e-08
Faecalibacterium_SGB15315 reads reads reads -0.231 0.138 1 1 abundance 1530 619 4.57e-09 3.22e-08
Faecalibacterium_SGB15315 reads reads reads 0.355 0.0594 2.29e-09 1.75e-08 prevalence 1530 619 4.57e-09 3.22e-08
Bacteroides_ovatus age age age -0.47 0.0764 2.43e-09 1.22e-07 abundance 1530 1180 4.87e-09 3.41e-08
Bacteroides_ovatus age age age -0.196 0.0647 0.00246 0.006 prevalence 1530 1180 4.87e-09 3.41e-08
Firmicutes_bacterium_AF16_15 reads reads reads -0.251 0.0995 1 1 abundance 1530 827 4.99e-09 3.47e-08
Firmicutes_bacterium_AF16_15 reads reads reads 0.366 0.0614 2.49e-09 1.9e-08 prevalence 1530 827 4.99e-09 3.47e-08
Lachnospira_eligens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.491 0.515 0.168 0.346 abundance 1530 929 5.1e-09 3.52e-08
Lachnospira_eligens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.41 0.237 2.55e-09 1.92e-08 prevalence 1530 929 5.1e-09 3.52e-08
Sutterella_wadsworthensis age age age -0.621 0.101 2.85e-09 1.3e-07 abundance 1530 536 5.7e-09 3.92e-08
Sutterella_wadsworthensis age age age -0.271 0.0582 3.23e-06 1.5e-05 prevalence 1530 536 5.7e-09 3.92e-08
Clostridium_leptum reads reads reads -0.5 0.111 1 1 abundance 1530 652 5.78e-09 3.94e-08
Clostridium_leptum reads reads reads 0.348 0.0586 2.89e-09 2.17e-08 prevalence 1530 652 5.78e-09 3.94e-08
Bacteroides_ovatus diagnosis UC diagnosisUC 1.26 0.199 3.04e-09 1.3e-07 abundance 1530 1180 6.09e-09 4.12e-08
Bacteroides_ovatus diagnosis UC diagnosisUC 0.872 0.2 1.27e-05 5.22e-05 prevalence 1530 1180 6.09e-09 4.12e-08
Clostridium_sp_AF20_17LB reads reads reads -0.177 0.103 1 1 abundance 1530 654 6.36e-09 4.28e-08
Clostridium_sp_AF20_17LB reads reads reads 0.341 0.0575 3.18e-09 2.37e-08 prevalence 1530 654 6.36e-09 4.28e-08
Bacteroides_thetaiotaomicron reads reads reads -0.271 0.0982 1 1 abundance 1530 1060 6.77e-09 4.53e-08
Bacteroides_thetaiotaomicron reads reads reads 0.387 0.0655 3.38e-09 2.5e-08 prevalence 1530 1060 6.77e-09 4.53e-08
Roseburia_inulinivorans diagnosis CD diagnosisCD 0.148 0.198 1 1 abundance 1530 951 7.83e-09 5.21e-08
Roseburia_inulinivorans diagnosis CD diagnosisCD -0.883 0.15 3.92e-09 2.87e-08 prevalence 1530 951 7.83e-09 5.21e-08
Waltera_intestinalis diagnosis CD diagnosisCD -0.255 0.333 1 1 abundance 1530 524 7.99e-09 5.28e-08
Waltera_intestinalis diagnosis CD diagnosisCD -0.811 0.138 3.99e-09 2.91e-08 prevalence 1530 524 7.99e-09 5.28e-08
Alistipes_communis diagnosis UC diagnosisUC -1.04 0.337 0.000997 0.00586 abundance 1530 407 8.62e-09 5.66e-08
Alistipes_communis diagnosis UC diagnosisUC -1.03 0.176 4.31e-09 3.12e-08 prevalence 1530 407 8.62e-09 5.66e-08
Dysosmobacter_sp_BX15 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.83 0.724 8.06e-07 1.69e-05 abundance 1530 621 8.99e-09 5.86e-08
Dysosmobacter_sp_BX15 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.19 0.373 4.49e-09 3.23e-08 prevalence 1530 621 8.99e-09 5.86e-08
Clostridium_sp_AT4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 3.32 0.594 4.85e-09 1.9e-07 abundance 1530 528 9.7e-09 6.29e-08
Clostridium_sp_AT4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.06 0.273 0.000108 0.000353 prevalence 1530 528 9.7e-09 6.29e-08
Clostridium_sp_AT4 reads reads reads -0.533 0.101 1 1 abundance 1530 528 1e-08 6.48e-08
Clostridium_sp_AT4 reads reads reads 0.342 0.0586 5.02e-09 3.59e-08 prevalence 1530 528 1e-08 6.48e-08
Coprococcus_comes diagnosis UC diagnosisUC 1.29 0.206 5.26e-09 1.97e-07 abundance 1530 759 1.05e-08 6.74e-08
Coprococcus_comes diagnosis UC diagnosisUC -0.13 0.144 0.367 0.465 prevalence 1530 759 1.05e-08 6.74e-08
GGB33512_SGB15201 age age age 0.483 0.0844 1.08e-08 7.48e-08 prevalence 1530 121 1.08e-08 6.9e-08
Anaerostipes_hadrus age age age -0.359 0.0706 9.16e-07 1.87e-05 abundance 1530 1130 1.15e-08 7.29e-08
Anaerostipes_hadrus age age age -0.363 0.0624 5.76e-09 4.09e-08 prevalence 1530 1130 1.15e-08 7.29e-08
Eubacterium_ventriosum diagnosis CD diagnosisCD -0.0287 0.273 1 1 abundance 1530 520 1.24e-08 7.79e-08
Eubacterium_ventriosum diagnosis CD diagnosisCD -0.802 0.138 6.19e-09 4.36e-08 prevalence 1530 520 1.24e-08 7.79e-08
Eubacterium_siraeum age age age 0.142 0.127 1 1 abundance 1530 565 1.26e-08 7.88e-08
Eubacterium_siraeum age age age 0.326 0.0561 6.3e-09 4.41e-08 prevalence 1530 565 1.26e-08 7.88e-08
Enterocloster_clostridioformis age age age 0.914 0.155 7.04e-09 2.53e-07 abundance 1530 312 1.41e-08 8.75e-08
Enterocloster_clostridioformis age age age 0.345 0.063 4.47e-08 2.76e-07 prevalence 1530 312 1.41e-08 8.75e-08
Fusicatenibacter_saccharivorans antibiotics Yes antibioticsYes -0.154 0.269 1 1 abundance 1530 1120 1.51e-08 9.36e-08
Fusicatenibacter_saccharivorans antibiotics Yes antibioticsYes -1.16 0.2 7.57e-09 5.27e-08 prevalence 1530 1120 1.51e-08 9.36e-08
Lachnospira_eligens reads reads reads -0.57 0.0896 1 1 abundance 1530 929 2.47e-08 1.51e-07
Oscillospiraceae_bacterium diagnosis UC diagnosisUC -4.05 0.643 1.23e-08 4.26e-07 abundance 1530 81 2.46e-08 1.51e-07
Lachnospira_eligens reads reads reads 0.342 0.06 1.24e-08 8.49e-08 prevalence 1530 929 2.47e-08 1.51e-07
Oscillospiraceae_bacterium diagnosis UC diagnosisUC -0.615 0.262 0.019 0.0373 prevalence 1530 81 2.46e-08 1.51e-07
Clostridium_leptum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.12 1.14 1 1 abundance 1530 652 2.73e-08 1.65e-07
Clostridium_sp_AF36_4 diagnosis CD diagnosisCD 0.369 0.211 0.0389 0.109 abundance 1530 568 2.72e-08 1.65e-07
Clostridium_leptum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.59 0.457 1.36e-08 9.24e-08 prevalence 1530 652 2.73e-08 1.65e-07
Clostridium_sp_AF36_4 diagnosis CD diagnosisCD -0.776 0.137 1.36e-08 9.24e-08 prevalence 1530 568 2.72e-08 1.65e-07
Collinsella_aerofaciens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.224 0.572 0.439 0.702 abundance 1530 698 3.09e-08 1.85e-07
Collinsella_aerofaciens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.5 0.266 1.54e-08 1.04e-07 prevalence 1530 698 3.09e-08 1.85e-07
Collinsella_SGB14861 diagnosis UC diagnosisUC 0.386 0.284 0.27 0.485 abundance 1530 593 3.7e-08 2.21e-07
Collinsella_SGB14861 diagnosis UC diagnosisUC -0.843 0.15 1.85e-08 1.24e-07 prevalence 1530 593 3.7e-08 2.21e-07
Flavonifractor_plautii diagnosis CD diagnosisCD 0.919 0.175 1.94e-08 6.48e-07 abundance 1530 1220 3.89e-08 2.31e-07
Flavonifractor_plautii diagnosis CD diagnosisCD 0.692 0.177 8.97e-05 0.000297 prevalence 1530 1220 3.89e-08 2.31e-07
GGB9708_SGB15234 age age age 0.338 0.16 0.03 0.0895 abundance 1530 282 4.02e-08 2.37e-07
GGB9708_SGB15234 age age age 0.358 0.0637 2.01e-08 1.34e-07 prevalence 1530 282 4.02e-08 2.37e-07
Bacteroides_uniformis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.694 0.561 0.0508 0.136 abundance 1530 1240 4.33e-08 2.54e-07
Bacteroides_uniformis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.98 0.353 2.17e-08 1.43e-07 prevalence 1530 1240 4.33e-08 2.54e-07
Oscillibacter_sp_ER4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.89 0.878 0.00247 0.0123 abundance 1530 458 5.2e-08 3.04e-07
Oscillibacter_sp_ER4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.37 0.427 2.6e-08 1.71e-07 prevalence 1530 458 5.2e-08 3.04e-07
Bacteroides_uniformis reads reads reads -0.0532 0.069 3.01e-05 0.000323 abundance 1530 1240 5.32e-08 3.09e-07
Bacteroides_uniformis reads reads reads 0.447 0.0803 2.66e-08 1.73e-07 prevalence 1530 1240 5.32e-08 3.09e-07
Eubacterium_siraeum diagnosis UC diagnosisUC -1.08 0.375 0.00222 0.0113 abundance 1530 565 5.42e-08 3.13e-07
Eubacterium_siraeum diagnosis UC diagnosisUC -0.838 0.151 2.71e-08 1.76e-07 prevalence 1530 565 5.42e-08 3.13e-07
Ruthenibacterium_lactatiformans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.879 0.531 0.0392 0.11 abundance 1530 797 5.49e-08 3.16e-07
Ruthenibacterium_lactatiformans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.33 0.24 2.75e-08 1.77e-07 prevalence 1530 797 5.49e-08 3.16e-07
Bilophila_wadsworthia diagnosis UC diagnosisUC 0.457 0.226 0.0894 0.213 abundance 1530 764 5.59e-08 3.19e-07
Bilophila_wadsworthia diagnosis UC diagnosisUC -0.828 0.149 2.79e-08 1.79e-07 prevalence 1530 764 5.59e-08 3.19e-07
Enterocloster_bolteae reads reads reads -0.494 0.0968 1 1 abundance 1530 866 5.96e-08 3.39e-07
Enterocloster_bolteae reads reads reads 0.313 0.0565 2.98e-08 1.9e-07 prevalence 1530 866 5.96e-08 3.39e-07
Parasutterella_excrementihominis diagnosis CD diagnosisCD 1.21 0.249 3.53e-07 8.14e-06 abundance 1530 699 6.19e-08 3.5e-07
Parasutterella_excrementihominis diagnosis CD diagnosisCD -0.749 0.135 3.09e-08 1.96e-07 prevalence 1530 699 6.19e-08 3.5e-07
Enterocloster_bolteae age age age 0.515 0.0942 3.14e-08 9.76e-07 abundance 1530 866 6.29e-08 3.53e-07
Enterocloster_bolteae age age age -0.0852 0.0538 0.113 0.175 prevalence 1530 866 6.29e-08 3.53e-07
Proteus_mirabilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 3.55 0.985 0.000236 0.00174 abundance 1530 100 6.4e-08 3.58e-07
Proteus_mirabilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.81 0.327 3.2e-08 2.01e-07 prevalence 1530 100 6.4e-08 3.58e-07
GGB3746_SGB5089 antibiotics Yes antibioticsYes -0.454 0.528 0.47 0.741 abundance 1530 651 6.75e-08 3.75e-07
GGB3746_SGB5089 antibiotics Yes antibioticsYes -1.28 0.232 3.37e-08 2.11e-07 prevalence 1530 651 6.75e-08 3.75e-07
Parasutterella_SGB9260 diagnosis UC diagnosisUC 1.7 0.357 7.72e-06 0.000109 abundance 1530 269 7.06e-08 3.91e-07
Parasutterella_SGB9260 diagnosis UC diagnosisUC 1.01 0.183 3.53e-08 2.2e-07 prevalence 1530 269 7.06e-08 3.91e-07
Anaerostipes_hadrus diagnosis UC diagnosisUC 1.07 0.181 4.01e-08 1.2e-06 abundance 1530 1130 8.02e-08 4.41e-07
Anaerostipes_hadrus diagnosis UC diagnosisUC -0.367 0.184 0.0463 0.0813 prevalence 1530 1130 8.02e-08 4.41e-07
Clostridium_sp_AF34_10BH diagnosis UC diagnosisUC -0.476 0.226 0.0157 0.0543 abundance 1530 960 9.62e-08 5.27e-07
Clostridium_sp_AF34_10BH diagnosis UC diagnosisUC -0.92 0.169 4.81e-08 2.95e-07 prevalence 1530 960 9.62e-08 5.27e-07
Akkermansia_sp_KLE1798 diagnosis CD diagnosisCD -1.52 0.285 9.85e-08 5.82e-07 prevalence 1530 70 9.85e-08 5.37e-07
Clostridium_sp_AF36_4 diagnosis UC diagnosisUC 0.107 0.231 1 1 abundance 1530 568 1.26e-07 6.81e-07
Clostridium_sp_AF36_4 diagnosis UC diagnosisUC -0.802 0.148 6.29e-08 3.82e-07 prevalence 1530 568 1.26e-07 6.81e-07
Roseburia_hominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.44 0.524 0.00161 0.00875 abundance 1530 876 1.38e-07 7.46e-07
Roseburia_hominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.27 0.236 6.91e-08 4.18e-07 prevalence 1530 876 1.38e-07 7.46e-07
Faecalibacterium_SGB15315 diagnosis CD diagnosisCD 1 0.3 0.000394 0.00267 abundance 1530 619 1.42e-07 7.64e-07
Faecalibacterium_SGB15315 diagnosis CD diagnosisCD -0.74 0.137 7.12e-08 4.28e-07 prevalence 1530 619 1.42e-07 7.64e-07
Roseburia_faecis age age age -0.125 0.0887 1 1 abundance 1530 922 1.52e-07 8.12e-07
Roseburia_faecis age age age 0.314 0.0585 7.61e-08 4.54e-07 prevalence 1530 922 1.52e-07 8.12e-07
Clostridium_sp_AT4 diagnosis CD diagnosisCD 0.3 0.311 0.235 0.44 abundance 1530 528 1.57e-07 8.31e-07
Clostridium_sp_AT4 diagnosis CD diagnosisCD 0.814 0.152 7.83e-08 4.65e-07 prevalence 1530 528 1.57e-07 8.31e-07
Fusicatenibacter_saccharivorans reads reads reads -0.451 0.0701 1 1 abundance 1530 1120 2.07e-07 1.09e-06
Fusicatenibacter_saccharivorans reads reads reads 0.367 0.0689 1.04e-07 6.08e-07 prevalence 1530 1120 2.07e-07 1.09e-06
Lactobacillus_acidophilus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.35 0.453 2.16e-07 1.19e-06 prevalence 1530 26 2.16e-07 1.13e-06
Dysosmobacter_welbionis diagnosis CD diagnosisCD 0.726 0.149 1.11e-07 3.11e-06 abundance 1530 1190 2.21e-07 1.16e-06
Dysosmobacter_welbionis diagnosis CD diagnosisCD 0.492 0.179 0.00607 0.0135 prevalence 1530 1190 2.21e-07 1.16e-06
Lacrimispora_amygdalina reads reads reads -0.318 0.077 1 1 abundance 1530 865 2.23e-07 1.16e-06
Lacrimispora_amygdalina reads reads reads 0.313 0.0591 1.12e-07 6.52e-07 prevalence 1530 865 2.23e-07 1.16e-06
Alistipes_communis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.06 0.805 0.295 0.52 abundance 1530 407 2.34e-07 1.21e-06
Alistipes_communis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2 0.378 1.17e-07 6.79e-07 prevalence 1530 407 2.34e-07 1.21e-06
Eubacterium_rectale age age age -0.357 0.065 1.21e-07 3.3e-06 abundance 1530 1210 2.42e-07 1.25e-06
Eubacterium_rectale age age age 0.199 0.0773 0.00995 0.021 prevalence 1530 1210 2.42e-07 1.25e-06
GGB3746_SGB5089 reads reads reads -0.538 0.109 1 1 abundance 1530 651 2.65e-07 1.36e-06
GGB3746_SGB5089 reads reads reads 0.304 0.0575 1.33e-07 7.66e-07 prevalence 1530 651 2.65e-07 1.36e-06
Roseburia_hominis diagnosis CD diagnosisCD -0.339 0.206 0.189 0.377 abundance 1530 876 2.72e-07 1.39e-06
Roseburia_hominis diagnosis CD diagnosisCD -0.78 0.148 1.36e-07 7.82e-07 prevalence 1530 876 2.72e-07 1.39e-06
Roseburia_inulinivorans reads reads reads -0.114 0.0856 1 1 abundance 1530 951 2.93e-07 1.49e-06
Roseburia_inulinivorans reads reads reads 0.32 0.0609 1.47e-07 8.38e-07 prevalence 1530 951 2.93e-07 1.49e-06
Bacteroides_stercoris dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.494 1.3 0.489 0.766 abundance 1530 826 2.98e-07 1.51e-06
Bacteroides_stercoris dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.37 0.451 1.49e-07 8.46e-07 prevalence 1530 826 2.98e-07 1.51e-06
Clostridium_sp_AF34_10BH antibiotics Yes antibioticsYes -0.437 0.381 0.339 0.58 abundance 1530 960 3e-07 1.51e-06
Clostridium_sp_AF34_10BH antibiotics Yes antibioticsYes -1.05 0.199 1.5e-07 8.48e-07 prevalence 1530 960 3e-07 1.51e-06
Collinsella_aerofaciens diagnosis UC diagnosisUC 1.36 0.242 1.54e-07 4.08e-06 abundance 1530 698 3.08e-07 1.54e-06
Collinsella_aerofaciens diagnosis UC diagnosisUC 0.132 0.143 0.357 0.455 prevalence 1530 698 3.08e-07 1.54e-06
Oscillospiraceae_bacterium diagnosis CD diagnosisCD -3.76 1.05 0.000761 0.00466 abundance 1530 81 3.33e-07 1.66e-06
Oscillospiraceae_bacterium diagnosis CD diagnosisCD -2.05 0.392 1.66e-07 9.36e-07 prevalence 1530 81 3.33e-07 1.66e-06
Bacteroides_salyersiae age age age 1.16 0.212 1.78e-07 4.59e-06 abundance 1530 150 3.57e-07 1.77e-06
Bacteroides_salyersiae age age age 0.38 0.0805 2.41e-06 1.17e-05 prevalence 1530 150 3.57e-07 1.77e-06
Faecalibacterium_SGB15315 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.42 1.53 0.149 0.315 abundance 1530 619 3.73e-07 1.84e-06
Faecalibacterium_SGB15315 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.62 0.503 1.87e-07 1.04e-06 prevalence 1530 619 3.73e-07 1.84e-06
Fusicatenibacter_saccharivorans diagnosis UC diagnosisUC 0.676 0.178 0.000719 0.00446 abundance 1530 1120 4.01e-07 1.97e-06
Fusicatenibacter_saccharivorans diagnosis UC diagnosisUC -0.969 0.186 2e-07 1.11e-06 prevalence 1530 1120 4.01e-07 1.97e-06
Ruminococcus_bromii age age age 0.0414 0.115 1 1 abundance 1530 429 4.83e-07 2.36e-06
Ruminococcus_bromii age age age 0.298 0.0577 2.41e-07 1.33e-06 prevalence 1530 429 4.83e-07 2.36e-06
Parabacteroides_merdae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.28 0.976 0.00608 0.0256 abundance 1530 826 4.88e-07 2.38e-06
Parabacteroides_merdae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.5 0.485 2.44e-07 1.34e-06 prevalence 1530 826 4.88e-07 2.38e-06
Parasutterella_SGB9260 diagnosis CD diagnosisCD 1.94 0.38 2.48e-07 6.19e-06 abundance 1530 269 4.95e-07 2.4e-06
Parasutterella_SGB9260 diagnosis CD diagnosisCD 0.191 0.186 0.306 0.402 prevalence 1530 269 4.95e-07 2.4e-06
GGB6601_SGB9333 age age age 0.533 0.107 5.67e-07 2.98e-06 prevalence 1530 69 5.67e-07 2.74e-06
Lacrimispora_celerecrescens age age age -0.36 0.0867 6.32e-05 0.000599 abundance 1530 756 6.19e-07 2.97e-06
Lacrimispora_celerecrescens age age age -0.284 0.0554 3.09e-07 1.69e-06 prevalence 1530 756 6.19e-07 2.97e-06
Ruminococcus_torques diagnosis CD diagnosisCD 0.879 0.184 3.25e-07 7.74e-06 abundance 1530 1090 6.49e-07 3.11e-06
Ruminococcus_torques diagnosis CD diagnosisCD -0.696 0.164 2.15e-05 8.32e-05 prevalence 1530 1090 6.49e-07 3.11e-06
Parabacteroides_distasonis reads reads reads -0.032 0.0603 3.27e-07 7.74e-06 abundance 1530 1140 6.54e-07 3.11e-06
Parabacteroides_distasonis reads reads reads 0.211 0.0671 0.00166 0.00425 prevalence 1530 1140 6.54e-07 3.11e-06
Akkermansia_muciniphila diagnosis UC diagnosisUC -0.356 0.456 0.349 0.588 abundance 1530 407 7.71e-07 3.64e-06
GGB9708_SGB15234 diagnosis UC diagnosisUC 0.652 0.488 0.236 0.441 abundance 1530 282 7.71e-07 3.64e-06
Akkermansia_muciniphila diagnosis UC diagnosisUC -0.842 0.166 3.85e-07 2.08e-06 prevalence 1530 407 7.71e-07 3.64e-06
GGB9708_SGB15234 diagnosis UC diagnosisUC -0.96 0.189 3.85e-07 2.08e-06 prevalence 1530 282 7.71e-07 3.64e-06
Dorea_longicatena diagnosis UC diagnosisUC 1.01 0.184 3.91e-07 8.8e-06 abundance 1530 1020 7.83e-07 3.68e-06
Dorea_longicatena diagnosis UC diagnosisUC -0.123 0.16 0.443 0.546 prevalence 1530 1020 7.83e-07 3.68e-06
Prevotella_copri_clade_A age age age -0.551 0.348 0.122 0.272 abundance 1530 289 8.08e-07 3.78e-06
Prevotella_copri_clade_A age age age -0.387 0.0763 4.04e-07 2.17e-06 prevalence 1530 289 8.08e-07 3.78e-06
Faecalibacterium_SGB15346 reads reads reads -0.678 0.0997 0.000798 0.00485 abundance 1530 743 9.04e-07 4.21e-06
Faecalibacterium_SGB15346 reads reads reads 0.287 0.057 4.52e-07 2.41e-06 prevalence 1530 743 9.04e-07 4.21e-06
Bacteroides_xylanisolvens reads reads reads -0.56 0.118 1 1 abundance 1530 959 9.5e-07 4.41e-06
Bacteroides_xylanisolvens reads reads reads 0.302 0.0599 4.75e-07 2.52e-06 prevalence 1530 959 9.5e-07 4.41e-06
Candidatus_Cibionibacter_quicibialis reads reads reads -0.348 0.0873 1 1 abundance 1530 933 1.02e-06 4.7e-06
Candidatus_Cibionibacter_quicibialis reads reads reads 0.299 0.0596 5.09e-07 2.69e-06 prevalence 1530 933 1.02e-06 4.7e-06
Oscillibacter_sp_ER4 diagnosis UC diagnosisUC 0.131 0.267 1 1 abundance 1530 458 1.23e-06 5.67e-06
Oscillibacter_sp_ER4 diagnosis UC diagnosisUC -0.789 0.158 6.17e-07 3.23e-06 prevalence 1530 458 1.23e-06 5.67e-06
Bacteroides_stercoris age age age -0.602 0.118 6.64e-07 1.46e-05 abundance 1530 826 1.33e-06 6.06e-06
Blautia_wexlerae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.546 0.508 1 1 abundance 1530 1300 1.33e-06 6.06e-06
Bacteroides_stercoris age age age -0.0954 0.054 0.0772 0.125 prevalence 1530 826 1.33e-06 6.06e-06
Blautia_wexlerae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.86 0.373 6.65e-07 3.46e-06 prevalence 1530 1300 1.33e-06 6.06e-06
Roseburia_inulinivorans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.309 0.754 0.345 0.586 abundance 1530 951 1.37e-06 6.23e-06
Roseburia_inulinivorans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.87 0.377 6.87e-07 3.56e-06 prevalence 1530 951 1.37e-06 6.23e-06
Phocaeicola_plebeius diagnosis CD diagnosisCD -3.91 0.732 6.98e-07 1.49e-05 abundance 1530 127 1.4e-06 6.3e-06
Phocaeicola_plebeius diagnosis CD diagnosisCD 0.3 0.271 0.269 0.36 prevalence 1530 127 1.4e-06 6.3e-06
Clostridium_sp_AF36_4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.465 0.723 1 1 abundance 1530 568 1.63e-06 7.34e-06
Clostridium_sp_AF36_4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.76 0.358 8.16e-07 4.21e-06 prevalence 1530 568 1.63e-06 7.34e-06
Eisenbergiella_massiliensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.47 0.947 0.0048 0.021 abundance 1530 417 1.89e-06 8.45e-06
GGB33469_SGB15236 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -6.45 1.24 9.48e-07 1.88e-05 abundance 1530 293 1.9e-06 8.45e-06
Eisenbergiella_massiliensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.61 0.329 9.47e-07 4.86e-06 prevalence 1530 417 1.89e-06 8.45e-06
GGB33469_SGB15236 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.97 0.51 0.000108 0.000353 prevalence 1530 293 1.9e-06 8.45e-06
Phascolarctobacterium_succinatutens diagnosis CD diagnosisCD -0.728 0.387 0.0914 0.216 abundance 1530 125 1.91e-06 8.46e-06
Phascolarctobacterium_succinatutens diagnosis CD diagnosisCD -1.25 0.256 9.53e-07 4.87e-06 prevalence 1530 125 1.91e-06 8.46e-06
Bacteroides_cellulosilyticus diagnosis UC diagnosisUC -1.76 0.369 9.59e-07 1.88e-05 abundance 1530 433 1.92e-06 8.49e-06
Bacteroides_cellulosilyticus diagnosis UC diagnosisUC -0.344 0.158 0.0289 0.0542 prevalence 1530 433 1.92e-06 8.49e-06
Gemmiger_formicilis antibiotics Yes antibioticsYes 0.386 0.356 0.199 0.392 abundance 1530 472 1.94e-06 8.54e-06
Gemmiger_formicilis antibiotics Yes antibioticsYes 0.938 0.191 9.7e-07 4.93e-06 prevalence 1530 472 1.94e-06 8.54e-06
Ruminococcus_torques dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.213 0.686 1 1 abundance 1530 1090 2.16e-06 9.49e-06
Ruminococcus_torques dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.74 0.357 1.08e-06 5.47e-06 prevalence 1530 1090 2.16e-06 9.49e-06
Blautia_faecis diagnosis UC diagnosisUC 0.985 0.186 1.11e-06 2.13e-05 abundance 1530 1120 2.22e-06 9.71e-06
Blautia_faecis diagnosis UC diagnosisUC 0.336 0.179 0.0602 0.101 prevalence 1530 1120 2.22e-06 9.71e-06
Blautia_wexlerae age age age -0.122 0.0687 1 1 abundance 1530 1300 2.27e-06 9.87e-06
Blautia_wexlerae age age age -0.367 0.0755 1.13e-06 5.71e-06 prevalence 1530 1300 2.27e-06 9.87e-06
Dorea_longicatena antibiotics Yes antibioticsYes -0.0691 0.274 1 1 abundance 1530 1020 2.4e-06 1.04e-05
Dorea_longicatena antibiotics Yes antibioticsYes -0.902 0.186 1.2e-06 6.02e-06 prevalence 1530 1020 2.4e-06 1.04e-05
Akkermansia_sp_KLE1798 diagnosis UC diagnosisUC -2.86 0.609 2.62e-06 1.26e-05 prevalence 1530 70 2.62e-06 1.13e-05
Blautia_obeum diagnosis CD diagnosisCD 0.954 0.21 1.37e-06 2.58e-05 abundance 1530 899 2.75e-06 1.18e-05
Blautia_obeum diagnosis CD diagnosisCD 0.105 0.137 0.445 0.548 prevalence 1530 899 2.75e-06 1.18e-05
Bifidobacterium_longum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.462 0.819 1 1 abundance 1530 843 2.81e-06 1.2e-05
Phocaeicola_dorei age age age 0.524 0.189 0.00485 0.021 abundance 1530 769 2.81e-06 1.2e-05
Bifidobacterium_longum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.8 0.374 1.41e-06 6.95e-06 prevalence 1530 843 2.81e-06 1.2e-05
Phocaeicola_dorei age age age 0.27 0.0561 1.4e-06 6.95e-06 prevalence 1530 769 2.81e-06 1.2e-05
Bacteroides_caccae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.543 0.776 1 1 abundance 1530 958 3.03e-06 1.29e-05
Bacteroides_caccae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.95 0.406 1.52e-06 7.45e-06 prevalence 1530 958 3.03e-06 1.29e-05
Lacrimispora_amygdalina diagnosis UC diagnosisUC 0.987 0.189 1.64e-06 3.02e-05 abundance 1530 865 3.28e-06 1.39e-05
Lacrimispora_amygdalina diagnosis UC diagnosisUC -0.0931 0.155 0.548 0.64 prevalence 1530 865 3.28e-06 1.39e-05
Bacteroides_finegoldii antibiotics Yes antibioticsYes 2.7 0.571 1.92e-06 3.45e-05 abundance 1530 333 3.83e-06 1.61e-05
Bacteroides_finegoldii antibiotics Yes antibioticsYes 0.926 0.212 1.26e-05 5.2e-05 prevalence 1530 333 3.83e-06 1.61e-05
Clostridium_sp_AF34_10BH diagnosis CD diagnosisCD -0.596 0.208 0.0114 0.042 abundance 1530 960 3.86e-06 1.62e-05
Clostridium_sp_AF34_10BH diagnosis CD diagnosisCD -0.758 0.159 1.93e-06 9.44e-06 prevalence 1530 960 3.86e-06 1.62e-05
Clostridiaceae_bacterium diagnosis UC diagnosisUC 0.456 0.175 0.0286 0.0857 abundance 1530 1110 4.16e-06 1.74e-05
Clostridiaceae_bacterium diagnosis UC diagnosisUC -0.893 0.188 2.08e-06 1.01e-05 prevalence 1530 1110 4.16e-06 1.74e-05
Phocaeicola_plebeius diagnosis UC diagnosisUC -3.67 0.751 2.19e-06 3.87e-05 abundance 1530 127 4.39e-06 1.83e-05
Phocaeicola_plebeius diagnosis UC diagnosisUC 1.01 0.257 8.8e-05 0.000292 prevalence 1530 127 4.39e-06 1.83e-05
Escherichia_coli antibiotics Yes antibioticsYes 2.02 0.439 2.33e-06 4.03e-05 abundance 1530 707 4.65e-06 1.93e-05
Escherichia_coli antibiotics Yes antibioticsYes -0.746 0.193 0.000111 0.00036 prevalence 1530 707 4.65e-06 1.93e-05
Flavonifractor_plautii diagnosis UC diagnosisUC 0.973 0.19 2.43e-06 4.12e-05 abundance 1530 1220 4.86e-06 2.01e-05
Flavonifractor_plautii diagnosis UC diagnosisUC 0.752 0.189 6.76e-05 0.000231 prevalence 1530 1220 4.86e-06 2.01e-05
Barnesiella_intestinihominis diagnosis UC diagnosisUC -1.17 0.317 0.000104 0.000887 abundance 1530 431 5.04e-06 2.07e-05
Barnesiella_intestinihominis diagnosis UC diagnosisUC -0.736 0.156 2.52e-06 1.22e-05 prevalence 1530 431 5.04e-06 2.07e-05
Eubacterium_ventriosum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.12 1.26 0.133 0.29 abundance 1530 520 5.25e-06 2.15e-05
Eubacterium_ventriosum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.36 0.503 2.63e-06 1.26e-05 prevalence 1530 520 5.25e-06 2.15e-05
Clostridium_leptum diagnosis CD diagnosisCD -0.89 0.24 0.000659 0.00412 abundance 1530 652 5.48e-06 2.24e-05
Clostridium_leptum diagnosis CD diagnosisCD -0.635 0.135 2.74e-06 1.3e-05 prevalence 1530 652 5.48e-06 2.24e-05
Phocaeicola_coprocola diagnosis UC diagnosisUC 5.27 2.45 0.0367 0.105 abundance 1530 101 5.59e-06 2.27e-05
Phocaeicola_coprocola diagnosis UC diagnosisUC 2.86 0.61 2.79e-06 1.32e-05 prevalence 1530 101 5.59e-06 2.27e-05
Bacteroides_cellulosilyticus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.78 1.02 0.0122 0.0446 abundance 1530 433 5.61e-06 2.27e-05
Bacteroides_cellulosilyticus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.7 0.363 2.81e-06 1.32e-05 prevalence 1530 433 5.61e-06 2.27e-05
Lachnospira_eligens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.965 0.763 0.462 0.731 abundance 1530 929 5.67e-06 2.29e-05
Lachnospira_eligens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.71 0.365 2.84e-06 1.33e-05 prevalence 1530 929 5.67e-06 2.29e-05
Clostridiaceae_bacterium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.11 0.639 0.646 0.967 abundance 1530 1110 5.72e-06 2.3e-05
Clostridiaceae_bacterium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.74 0.372 2.86e-06 1.34e-05 prevalence 1530 1110 5.72e-06 2.3e-05
GGB3278_SGB4328 diagnosis CD diagnosisCD -0.827 0.493 0.126 0.278 abundance 1530 179 6.32e-06 2.53e-05
GGB3278_SGB4328 diagnosis CD diagnosisCD -0.905 0.194 3.16e-06 1.47e-05 prevalence 1530 179 6.32e-06 2.53e-05
Flavonifractor_plautii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.2 0.303 3.27e-06 5.35e-05 abundance 1530 1220 6.54e-06 2.61e-05
Flavonifractor_plautii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.06 0.233 5.52e-06 2.47e-05 prevalence 1530 1220 6.54e-06 2.61e-05
Anaerostipes_hadrus diagnosis CD diagnosisCD 0.702 0.166 3.59e-06 5.77e-05 abundance 1530 1130 7.18e-06 2.85e-05
Anaerostipes_hadrus diagnosis CD diagnosisCD -0.349 0.175 0.0463 0.0813 prevalence 1530 1130 7.18e-06 2.85e-05
Alistipes_onderdonkii diagnosis CD diagnosisCD -0.121 0.23 1 1 abundance 1530 831 7.61e-06 3.01e-05
Alistipes_onderdonkii diagnosis CD diagnosisCD -0.658 0.142 3.8e-06 1.76e-05 prevalence 1530 831 7.61e-06 3.01e-05
GGB9480_SGB14874 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.14 1.11 0.221 0.424 abundance 1530 332 8.17e-06 3.22e-05
GGB9480_SGB14874 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.32 0.504 4.09e-06 1.88e-05 prevalence 1530 332 8.17e-06 3.22e-05
Phocaeicola_coprocola diagnosis CD diagnosisCD 5.7 2.41 0.0186 0.0611 abundance 1530 101 8.36e-06 3.29e-05
Phocaeicola_coprocola diagnosis CD diagnosisCD 2.79 0.607 4.18e-06 1.91e-05 prevalence 1530 101 8.36e-06 3.29e-05
Acidaminococcus_intestini age age age 0.629 0.174 0.00032 0.00221 abundance 1530 173 8.57e-06 3.35e-05
Barnesiella_intestinihominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.96 1.04 0.00877 0.0345 abundance 1530 431 8.58e-06 3.35e-05
Acidaminococcus_intestini age age age 0.36 0.0782 4.28e-06 1.95e-05 prevalence 1530 173 8.57e-06 3.35e-05
Barnesiella_intestinihominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.95 0.425 4.29e-06 1.95e-05 prevalence 1530 431 8.58e-06 3.35e-05
Parasutterella_excrementihominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.06 0.627 0.0428 0.117 abundance 1530 699 8.85e-06 3.44e-05
Parasutterella_excrementihominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.24 0.269 4.43e-06 2e-05 prevalence 1530 699 8.85e-06 3.44e-05
Dysosmobacter_sp_BX15 diagnosis UC diagnosisUC -0.909 0.212 4.63e-06 7.31e-05 abundance 1530 621 9.27e-06 3.59e-05
Dysosmobacter_sp_BX15 diagnosis UC diagnosisUC -0.629 0.146 1.61e-05 6.36e-05 prevalence 1530 621 9.27e-06 3.59e-05
Clostridiales_bacterium age age age -0.0272 0.0766 1 1 abundance 1530 985 1.01e-05 3.89e-05
Clostridiales_bacterium age age age 0.291 0.0639 5.05e-06 2.27e-05 prevalence 1530 985 1.01e-05 3.89e-05
Lacrimispora_celerecrescens reads reads reads -0.405 0.0814 1 1 abundance 1530 756 1.12e-05 4.32e-05
Lacrimispora_celerecrescens reads reads reads 0.257 0.0566 5.62e-06 2.51e-05 prevalence 1530 756 1.12e-05 4.32e-05
Coprococcus_comes diagnosis CD diagnosisCD 0.823 0.195 5.66e-06 8.64e-05 abundance 1530 759 1.13e-05 4.34e-05
Coprococcus_comes diagnosis CD diagnosisCD -0.143 0.134 0.288 0.384 prevalence 1530 759 1.13e-05 4.34e-05
Bacteroides_xylanisolvens age age age 0.122 0.126 1 1 abundance 1530 959 1.15e-05 4.38e-05
Bacteroides_xylanisolvens age age age -0.253 0.0558 5.74e-06 2.55e-05 prevalence 1530 959 1.15e-05 4.38e-05
Clostridiales_bacterium diagnosis UC diagnosisUC 0.971 0.197 5.96e-06 8.94e-05 abundance 1530 985 1.19e-05 4.53e-05
Clostridiales_bacterium diagnosis UC diagnosisUC -0.626 0.165 0.000153 0.000487 prevalence 1530 985 1.19e-05 4.53e-05
Prevotella_copri_clade_B age age age 2.92 0.546 6.36e-06 9.38e-05 abundance 1530 40 1.27e-05 4.82e-05
Prevotella_copri_clade_B age age age 0.282 0.139 0.0426 0.0754 prevalence 1530 40 1.27e-05 4.82e-05
GGB33469_SGB15236 diagnosis CD diagnosisCD 0.936 0.341 0.00348 0.0162 abundance 1530 293 1.28e-05 4.82e-05
GGB33469_SGB15236 diagnosis CD diagnosisCD -0.707 0.157 6.38e-06 2.82e-05 prevalence 1530 293 1.28e-05 4.82e-05
Veillonella_rogosae age age age 0.137 0.265 1 1 abundance 1530 207 1.28e-05 4.82e-05
Veillonella_rogosae age age age -0.408 0.0903 6.41e-06 2.82e-05 prevalence 1530 207 1.28e-05 4.82e-05
Roseburia_intestinalis antibiotics Yes antibioticsYes -1.52 0.456 0.00154 0.00858 abundance 1530 842 1.31e-05 4.91e-05
Roseburia_intestinalis antibiotics Yes antibioticsYes -0.838 0.186 6.56e-06 2.87e-05 prevalence 1530 842 1.31e-05 4.91e-05
Clostridium_sp_AM22_11AC diagnosis CD diagnosisCD 1 0.235 6.59e-06 9.57e-05 abundance 1530 730 1.32e-05 4.92e-05
Clostridium_sp_AM22_11AC diagnosis CD diagnosisCD -0.312 0.134 0.0203 0.0394 prevalence 1530 730 1.32e-05 4.92e-05
Faecalibacterium_SGB15315 age age age -0.199 0.137 1 1 abundance 1530 619 1.33e-05 4.93e-05
Faecalibacterium_SGB15315 age age age -0.262 0.0581 6.63e-06 2.9e-05 prevalence 1530 619 1.33e-05 4.93e-05
GGB1680_SGB2312 age age age 1.17 0.269 1.4e-05 5.68e-05 prevalence 1530 12 1.4e-05 5.19e-05
Bacteroides_salyersiae reads reads reads -0.0485 0.223 0.19 0.377 abundance 1530 150 1.47e-05 5.45e-05
Bacteroides_salyersiae reads reads reads 0.377 0.084 7.37e-06 3.21e-05 prevalence 1530 150 1.47e-05 5.45e-05
Faecalibacterium_SGB15315 diagnosis UC diagnosisUC 0.621 0.318 0.0851 0.204 abundance 1530 619 1.5e-05 5.51e-05
Faecalibacterium_SGB15315 diagnosis UC diagnosisUC -0.663 0.148 7.48e-06 3.24e-05 prevalence 1530 619 1.5e-05 5.51e-05
Clostridium_sp_AF36_4 age age age 0.0762 0.0837 1 1 abundance 1530 568 1.51e-05 5.54e-05
Clostridium_sp_AF36_4 age age age 0.25 0.0559 7.54e-06 3.25e-05 prevalence 1530 568 1.51e-05 5.54e-05
Waltera_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.7 1.13 0.189 0.377 abundance 1530 524 1.52e-05 5.56e-05
Waltera_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.68 0.375 7.6e-06 3.27e-05 prevalence 1530 524 1.52e-05 5.56e-05
Alistipes_dispar antibiotics Yes antibioticsYes 4.67 0.987 7.77e-06 0.000109 abundance 1530 83 1.55e-05 5.66e-05
Alistipes_dispar antibiotics Yes antibioticsYes 0.616 0.323 0.0562 0.0967 prevalence 1530 83 1.55e-05 5.66e-05
Vescimonas_coprocola reads reads reads -0.578 0.107 1 1 abundance 1530 599 1.75e-05 6.37e-05
Vescimonas_coprocola reads reads reads 0.259 0.0583 8.76e-06 3.73e-05 prevalence 1530 599 1.75e-05 6.37e-05
Bacteroides_thetaiotaomicron dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.3 0.84 0.0428 0.117 abundance 1530 1060 1.8e-05 6.52e-05
Bacteroides_thetaiotaomicron dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.59 0.359 9.01e-06 3.83e-05 prevalence 1530 1060 1.8e-05 6.52e-05
Bacteroides_ovatus reads reads reads -0.00272 0.0761 9.2e-06 0.000126 abundance 1530 1180 1.84e-05 6.64e-05
Bacteroides_ovatus reads reads reads 0.278 0.0713 9.5e-05 0.000312 prevalence 1530 1180 1.84e-05 6.64e-05
Alistipes_putredinis age age age -0.304 0.0798 0.000253 0.00184 abundance 1530 873 1.9e-05 6.84e-05
Alistipes_putredinis age age age 0.265 0.0599 9.51e-06 4.02e-05 prevalence 1530 873 1.9e-05 6.84e-05
Phocaeicola_massiliensis diagnosis UC diagnosisUC -1.64 0.381 9.67e-06 0.00013 abundance 1530 396 1.93e-05 6.93e-05
Phocaeicola_massiliensis diagnosis UC diagnosisUC 0.176 0.152 0.246 0.335 prevalence 1530 396 1.93e-05 6.93e-05
Parasutterella_excrementihominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.87 0.976 0.134 0.29 abundance 1530 699 1.95e-05 6.95e-05
Parasutterella_excrementihominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.88 0.426 9.74e-06 4.1e-05 prevalence 1530 699 1.95e-05 6.95e-05
Parabacteroides_merdae age age age -0.358 0.0783 1.06e-05 0.00014 abundance 1530 826 2.11e-05 7.51e-05
Parabacteroides_merdae age age age -0.11 0.054 0.0411 0.0731 prevalence 1530 826 2.11e-05 7.51e-05
Clostridium_fessum diagnosis CD diagnosisCD 0.671 0.168 1.15e-05 0.00015 abundance 1530 926 2.29e-05 8.11e-05
Fusicatenibacter_saccharivorans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.32 0.643 0.155 0.324 abundance 1530 1120 2.3e-05 8.11e-05
Vescimonas_coprocola dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.55 0.824 0.687 1 abundance 1530 599 2.29e-05 8.11e-05
Clostridium_fessum diagnosis CD diagnosisCD -0.443 0.153 0.00374 0.00876 prevalence 1530 926 2.29e-05 8.11e-05
Fusicatenibacter_saccharivorans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.63 0.372 1.15e-05 4.81e-05 prevalence 1530 1120 2.3e-05 8.11e-05
Vescimonas_coprocola dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.39 0.317 1.14e-05 4.8e-05 prevalence 1530 599 2.29e-05 8.11e-05
Bacteroides_uniformis diagnosis CD diagnosisCD 0.457 0.171 0.00212 0.011 abundance 1530 1240 2.33e-05 8.16e-05
Roseburia_sp_AF02_12 reads reads reads -0.318 0.174 1 1 abundance 1530 363 2.33e-05 8.16e-05
Bacteroides_uniformis diagnosis CD diagnosisCD 0.865 0.197 1.16e-05 4.83e-05 prevalence 1530 1240 2.33e-05 8.16e-05
Roseburia_sp_AF02_12 reads reads reads 0.289 0.066 1.17e-05 4.83e-05 prevalence 1530 363 2.33e-05 8.16e-05
Coprococcus_comes dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.43 1.07 0.00845 0.0334 abundance 1530 759 2.34e-05 8.17e-05
Coprococcus_comes dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.33 0.531 1.17e-05 4.84e-05 prevalence 1530 759 2.34e-05 8.17e-05
Oscillibacter_sp_ER4 antibiotics Yes antibioticsYes -1.55 0.335 1.2e-05 0.000155 abundance 1530 458 2.41e-05 8.37e-05
Oscillibacter_sp_ER4 antibiotics Yes antibioticsYes 0.371 0.198 0.0608 0.102 prevalence 1530 458 2.41e-05 8.37e-05
Lachnospira_eligens age age age 0.365 0.0855 1.22e-05 0.000155 abundance 1530 929 2.44e-05 8.47e-05
Lachnospira_eligens age age age 0.202 0.0585 0.000543 0.00151 prevalence 1530 929 2.44e-05 8.47e-05
Odoribacter_splanchnicus antibiotics Yes antibioticsYes 0.425 0.207 0.0164 0.0557 abundance 1530 757 2.65e-05 9.16e-05
Odoribacter_splanchnicus antibiotics Yes antibioticsYes 0.877 0.201 1.33e-05 5.41e-05 prevalence 1530 757 2.65e-05 9.16e-05
Alistipes_putredinis diagnosis CD diagnosisCD -0.585 0.191 0.00685 0.0283 abundance 1530 873 2.8e-05 9.65e-05
Alistipes_putredinis diagnosis CD diagnosisCD -0.651 0.15 1.4e-05 5.68e-05 prevalence 1530 873 2.8e-05 9.65e-05
Waltera_intestinalis diagnosis UC diagnosisUC -0.178 0.344 0.467 0.738 abundance 1530 524 2.93e-05 0.000101
Waltera_intestinalis diagnosis UC diagnosisUC -0.638 0.147 1.46e-05 5.91e-05 prevalence 1530 524 2.93e-05 0.000101
Phascolarctobacterium_faecium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.902 0.589 0.246 0.454 abundance 1530 503 3.05e-05 0.000104
Phascolarctobacterium_faecium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.22 0.281 1.52e-05 6.13e-05 prevalence 1530 503 3.05e-05 0.000104
Bacteroides_fragilis diagnosis UC diagnosisUC 1.42 0.309 1.55e-05 0.000192 abundance 1530 787 3.11e-05 0.000106
Bacteroides_fragilis diagnosis UC diagnosisUC 0.334 0.144 0.0207 0.0402 prevalence 1530 787 3.11e-05 0.000106
GGB9713_SGB15249 diagnosis CD diagnosisCD -0.495 0.348 0.221 0.424 abundance 1530 329 3.13e-05 0.000106
Ruminococcus_bromii diagnosis CD diagnosisCD -0.716 0.271 0.0171 0.0575 abundance 1530 429 3.13e-05 0.000106
GGB9713_SGB15249 diagnosis CD diagnosisCD -0.649 0.15 1.56e-05 6.24e-05 prevalence 1530 329 3.13e-05 0.000106
Ruminococcus_bromii diagnosis CD diagnosisCD -0.609 0.141 1.56e-05 6.24e-05 prevalence 1530 429 3.13e-05 0.000106
Phascolarctobacterium_faecium reads reads reads -0.195 0.11 1 1 abundance 1530 503 3.21e-05 0.000108
Phascolarctobacterium_faecium reads reads reads 0.26 0.0602 1.61e-05 6.36e-05 prevalence 1530 503 3.21e-05 0.000108
Prevotella_stercorea age age age -1.38 0.333 3.26e-05 0.00012 prevalence 1530 40 3.26e-05 0.00011
Prevotella_copri_clade_B diagnosis UC diagnosisUC -7.4 1.48 1.65e-05 2e-04 abundance 1530 40 3.3e-05 0.000111
Prevotella_copri_clade_B diagnosis UC diagnosisUC -1.37 0.515 0.00762 0.0167 prevalence 1530 40 3.3e-05 0.000111
Veillonella_parvula reads reads reads -0.964 0.143 1.67e-05 2e-04 abundance 1530 547 3.34e-05 0.000112
Veillonella_parvula reads reads reads 0.0796 0.0561 0.156 0.23 prevalence 1530 547 3.34e-05 0.000112
Ruminococcus_bicirculans reads reads reads -0.353 0.108 1 1 abundance 1530 678 3.68e-05 0.000123
Ruminococcus_bicirculans reads reads reads 0.24 0.0561 1.84e-05 7.25e-05 prevalence 1530 678 3.68e-05 0.000123
Eisenbergiella_massiliensis diagnosis CD diagnosisCD 0.5 0.404 0.16 0.331 abundance 1530 417 3.8e-05 0.000126
Eisenbergiella_massiliensis diagnosis CD diagnosisCD 0.653 0.153 1.9e-05 7.47e-05 prevalence 1530 417 3.8e-05 0.000126
Bacteroides_finegoldii age age age 0.307 0.188 0.0928 0.218 abundance 1530 333 4.02e-05 0.000133
Coprococcus_comes reads reads reads -0.522 0.0812 1 1 abundance 1530 759 4.02e-05 0.000133
Bacteroides_finegoldii age age age 0.261 0.0613 2.01e-05 7.85e-05 prevalence 1530 333 4.02e-05 0.000133
Coprococcus_comes reads reads reads 0.242 0.0568 2.01e-05 7.85e-05 prevalence 1530 759 4.02e-05 0.000133
Ruminococcus_bromii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.498 0.816 0.381 0.627 abundance 1530 429 4.05e-05 0.000133
Ruminococcus_bromii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.53 0.359 2.02e-05 7.87e-05 prevalence 1530 429 4.05e-05 0.000133
Gemmiger_formicilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.57 0.649 2.04e-05 0.000236 abundance 1530 472 4.08e-05 0.000134
Gemmiger_formicilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.01 0.284 0.000387 0.0011 prevalence 1530 472 4.08e-05 0.000134
Alistipes_shahii reads reads reads 0.0204 0.0846 2.14e-05 0.000243 abundance 1530 673 4.27e-05 0.00014
Alistipes_shahii reads reads reads 0.218 0.0574 0.000149 0.000474 prevalence 1530 673 4.27e-05 0.00014
Acidaminococcus_intestini diagnosis CD diagnosisCD -0.0704 0.524 1 1 abundance 1530 173 4.47e-05 0.000146
Acidaminococcus_intestini diagnosis CD diagnosisCD 0.931 0.219 2.23e-05 8.62e-05 prevalence 1530 173 4.47e-05 0.000146
Dorea_longicatena reads reads reads -0.435 0.0715 1 1 abundance 1530 1020 4.82e-05 0.000156
Lacrimispora_amygdalina dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.328 0.655 0.265 0.476 abundance 1530 865 4.81e-05 0.000156
Dorea_longicatena reads reads reads 0.255 0.0603 2.41e-05 9.23e-05 prevalence 1530 1020 4.82e-05 0.000156
Lacrimispora_amygdalina dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.58 0.374 2.41e-05 9.23e-05 prevalence 1530 865 4.81e-05 0.000156
Ruminococcus_sp_BSD2780120874_150323_B10 diagnosis UC diagnosisUC -1.83 0.451 4.8e-05 0.000171 prevalence 1530 90 4.8e-05 0.000156
Collinsella_aerofaciens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.22 1.22 0.0315 0.0924 abundance 1530 698 4.88e-05 0.000157
Collinsella_aerofaciens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.24 0.531 2.44e-05 9.31e-05 prevalence 1530 698 4.88e-05 0.000157
GGB9713_SGB15249 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.62 1.36 0.0796 0.193 abundance 1530 329 4.96e-05 0.000159
GGB9713_SGB15249 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.15 0.509 2.48e-05 9.43e-05 prevalence 1530 329 4.96e-05 0.000159
Clostridium_sp_AM49_4BH age age age 0.188 0.13 1 1 abundance 1530 344 5.05e-05 0.000162
Clostridium_sp_AM49_4BH age age age 0.27 0.064 2.53e-05 9.57e-05 prevalence 1530 344 5.05e-05 0.000162
Clostridium_symbiosum diagnosis CD diagnosisCD -0.541 0.338 0.164 0.339 abundance 1530 539 5.23e-05 0.000167
Clostridium_symbiosum diagnosis CD diagnosisCD 0.639 0.152 2.62e-05 9.87e-05 prevalence 1530 539 5.23e-05 0.000167
Roseburia_inulinivorans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.00757 0.466 1 1 abundance 1530 951 5.57e-05 0.000177
Roseburia_inulinivorans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.96 0.229 2.79e-05 0.000105 prevalence 1530 951 5.57e-05 0.000177
Ruminococcus_bicirculans diagnosis UC diagnosisUC -0.238 0.245 0.205 0.398 abundance 1530 678 5.62e-05 0.000178
Ruminococcus_bicirculans diagnosis UC diagnosisUC -0.614 0.147 2.81e-05 0.000105 prevalence 1530 678 5.62e-05 0.000178
Veillonella_rogosae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.31 0.596 0.011 0.0412 abundance 1530 207 5.86e-05 0.000185
Veillonella_rogosae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.09 0.261 2.93e-05 0.000109 prevalence 1530 207 5.86e-05 0.000185
Clostridium_fessum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.768 0.882 0.679 1 abundance 1530 926 5.96e-05 0.000188
Clostridium_fessum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.91 0.458 2.98e-05 0.000111 prevalence 1530 926 5.96e-05 0.000188
Prevotella_copri_clade_E age age age -1.32 0.329 6.03e-05 0.000208 prevalence 1530 38 6.03e-05 0.00019
GGB9708_SGB15234 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.0147 1.66 1 1 abundance 1530 282 6.07e-05 0.00019
GGB9708_SGB15234 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.4 0.574 3.04e-05 0.000113 prevalence 1530 282 6.07e-05 0.00019
Roseburia_hominis antibiotics Yes antibioticsYes 0.249 0.383 0.401 0.654 abundance 1530 876 6.26e-05 0.000196
Roseburia_hominis antibiotics Yes antibioticsYes -0.799 0.192 3.13e-05 0.000116 prevalence 1530 876 6.26e-05 0.000196
Bacteroides_finegoldii reads reads reads -1.06 0.188 0.00018 0.00144 abundance 1530 333 6.32e-05 0.000197
Bacteroides_finegoldii reads reads reads 0.274 0.0659 3.16e-05 0.000116 prevalence 1530 333 6.32e-05 0.000197
GGB3746_SGB5089 age age age -0.446 0.104 3.32e-05 0.000352 abundance 1530 651 6.64e-05 0.000206
GGB3746_SGB5089 age age age 0.17 0.0549 0.00199 0.00495 prevalence 1530 651 6.64e-05 0.000206
Firmicutes_bacterium_AF16_15 antibiotics Yes antibioticsYes -0.206 0.393 1 1 abundance 1530 827 6.82e-05 0.000211
Firmicutes_bacterium_AF16_15 antibiotics Yes antibioticsYes -0.865 0.209 3.41e-05 0.000125 prevalence 1530 827 6.82e-05 0.000211
Clostridium_sp_AF20_17LB diagnosis CD diagnosisCD 1.04 0.266 3.47e-05 0.000364 abundance 1530 654 6.95e-05 0.000215
Clostridium_sp_AF20_17LB diagnosis CD diagnosisCD 0.229 0.135 0.0905 0.143 prevalence 1530 654 6.95e-05 0.000215
GGB1543_SGB2126 diagnosis UC diagnosisUC -7.55 1.61 3.64e-05 0.000377 abundance 1530 42 7.29e-05 0.000225
GGB1543_SGB2126 diagnosis UC diagnosisUC -0.784 0.4 0.05 0.0874 prevalence 1530 42 7.29e-05 0.000225
Dysgonomonas_mossii diagnosis CD diagnosisCD -3.59 0.908 7.64e-05 0.000258 prevalence 1530 31 7.64e-05 0.000235
GGB3267_SGB4317 diagnosis CD diagnosisCD -2.71 1 0.0113 0.042 abundance 1530 54 7.95e-05 0.000244
GGB3267_SGB4317 diagnosis CD diagnosisCD -1.86 0.453 3.98e-05 0.000145 prevalence 1530 54 7.95e-05 0.000244
Barnesiella_intestinihominis age age age -0.307 0.119 0.0134 0.0482 abundance 1530 431 8.11e-05 0.000248
Barnesiella_intestinihominis age age age 0.236 0.0574 4.05e-05 0.000147 prevalence 1530 431 8.11e-05 0.000248
Enterocloster_clostridioformis reads reads reads -0.725 0.156 0.0147 0.052 abundance 1530 312 8.36e-05 0.000255
Enterocloster_clostridioformis reads reads reads 0.271 0.0662 4.18e-05 0.000151 prevalence 1530 312 8.36e-05 0.000255
Barnesiella_intestinihominis diagnosis CD diagnosisCD -0.381 0.29 0.282 0.502 abundance 1530 431 8.53e-05 0.000259
Barnesiella_intestinihominis diagnosis CD diagnosisCD -0.578 0.141 4.26e-05 0.000153 prevalence 1530 431 8.53e-05 0.000259
Lacrimispora_celerecrescens diagnosis CD diagnosisCD 0.732 0.195 4.42e-05 0.000447 abundance 1530 756 8.85e-05 0.000267
Roseburia_faecis diagnosis UC diagnosisUC 0.685 0.253 0.0159 0.0546 abundance 1530 922 8.85e-05 0.000267
Lacrimispora_celerecrescens diagnosis CD diagnosisCD -0.403 0.135 0.00286 0.00691 prevalence 1530 756 8.85e-05 0.000267
Roseburia_faecis diagnosis UC diagnosisUC -0.619 0.152 4.42e-05 0.000159 prevalence 1530 922 8.85e-05 0.000267
Roseburia_faecis reads reads reads -0.336 0.0959 1 1 abundance 1530 922 8.94e-05 0.000269
Roseburia_faecis reads reads reads 0.234 0.0574 4.47e-05 0.00016 prevalence 1530 922 8.94e-05 0.000269
Prevotella_sp_885 diagnosis UC diagnosisUC 2.94 2.85 0.318 0.555 abundance 1530 69 9.67e-05 0.00029
Prevotella_sp_885 diagnosis UC diagnosisUC 2.25 0.554 4.84e-05 0.000172 prevalence 1530 69 9.67e-05 0.00029
Tyzzerella_nexilis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.34 0.794 0.241 0.448 abundance 1530 188 9.87e-05 0.000296
Tyzzerella_nexilis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.5 0.369 4.94e-05 0.000174 prevalence 1530 188 9.87e-05 0.000296
Phocaeicola_sartorii diagnosis CD diagnosisCD 1.31 0.336 5.04e-05 0.000504 abundance 1530 424 0.000101 0.000301
Phocaeicola_sartorii diagnosis CD diagnosisCD 0.109 0.157 0.486 0.584 prevalence 1530 424 0.000101 0.000301
GGB3175_SGB4191 diagnosis CD diagnosisCD -1.38 0.521 0.0131 0.0476 abundance 1530 154 0.000104 0.000309
GGB3175_SGB4191 diagnosis CD diagnosisCD -0.778 0.192 5.18e-05 0.000183 prevalence 1530 154 0.000104 0.000309
Proteus_mirabilis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.355 1.32 0.566 0.866 abundance 1530 100 0.000107 0.000316
Proteus_mirabilis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.87 0.464 5.33e-05 0.000187 prevalence 1530 100 0.000107 0.000316
Enterocloster_clostridioformis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.74 0.483 6.33e-05 0.000599 abundance 1530 312 0.000108 0.000318
Enterocloster_clostridioformis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.894 0.221 5.38e-05 0.000188 prevalence 1530 312 0.000108 0.000318
Clostridiales_bacterium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.431 0.713 1 1 abundance 1530 985 0.000113 0.000334
Clostridiales_bacterium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.53 0.379 5.66e-05 0.000197 prevalence 1530 985 0.000113 0.000334
GGB3746_SGB5089 diagnosis CD diagnosisCD -0.309 0.248 1 1 abundance 1530 651 0.000115 0.00034
GGB3746_SGB5089 diagnosis CD diagnosisCD -0.547 0.136 5.77e-05 2e-04 prevalence 1530 651 0.000115 0.00034
GGB3746_SGB5089 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.867 0.615 0.0781 0.191 abundance 1530 651 0.000116 0.000341
GGB3746_SGB5089 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.09 0.271 5.8e-05 0.000201 prevalence 1530 651 0.000116 0.000341
Haemophilus_parainfluenzae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.44 0.411 6.12e-05 0.000598 abundance 1530 674 0.000122 0.000358
Haemophilus_parainfluenzae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.442 0.214 0.039 0.07 prevalence 1530 674 0.000122 0.000358
Prevotella_sp_885 diagnosis CD diagnosisCD 4.46 2.65 0.0926 0.218 abundance 1530 69 0.000125 0.000366
Prevotella_sp_885 diagnosis CD diagnosisCD 2.24 0.559 6.27e-05 0.000216 prevalence 1530 69 0.000125 0.000366
Clostridium_leptum age age age -0.403 0.0975 6.35e-05 0.000599 abundance 1530 652 0.000127 0.00037
Clostridium_leptum age age age 0.0906 0.0552 0.101 0.158 prevalence 1530 652 0.000127 0.00037
Roseburia_intestinalis age age age -0.446 0.108 6.39e-05 0.000599 abundance 1530 842 0.000128 0.000371
Roseburia_intestinalis age age age 0.0956 0.0541 0.0774 0.125 prevalence 1530 842 0.000128 0.000371
Bacteroides_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -4.57 1.11 0.000102 0.000874 abundance 1530 434 0.000132 0.000381
Bacteroides_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.29 0.323 6.59e-05 0.000226 prevalence 1530 434 0.000132 0.000381
Bacteroides_salyersiae antibiotics Yes antibioticsYes 1.51 0.577 0.00683 0.0283 abundance 1530 150 0.000138 0.000399
Bacteroides_salyersiae antibiotics Yes antibioticsYes 0.981 0.247 6.9e-05 0.000235 prevalence 1530 150 0.000138 0.000399
Coprococcus_eutactus diagnosis UC diagnosisUC 2.02 0.477 6.93e-05 0.000643 abundance 1530 177 0.000139 0.000399
Coprococcus_eutactus diagnosis UC diagnosisUC -0.711 0.202 0.000428 0.00121 prevalence 1530 177 0.000139 0.000399
Phascolarctobacterium_faecium antibiotics Yes antibioticsYes 0.329 0.346 0.246 0.454 abundance 1530 503 0.000143 0.000412
Phascolarctobacterium_faecium antibiotics Yes antibioticsYes 0.763 0.192 7.17e-05 0.000244 prevalence 1530 503 0.000143 0.000412
Bacteroides_faecis age age age -0.704 0.173 7.31e-05 0.000665 abundance 1530 434 0.000146 0.000419
Bacteroides_faecis age age age 0.00738 0.06 0.902 0.931 prevalence 1530 434 0.000146 0.000419
Faecalibacterium_SGB15315 antibiotics Yes antibioticsYes -1.88 0.588 0.00221 0.0113 abundance 1530 619 0.000158 0.000453
Faecalibacterium_SGB15315 antibiotics Yes antibioticsYes -0.909 0.23 7.92e-05 0.000267 prevalence 1530 619 0.000158 0.000453
GGB1549_SGB2133 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -6.22 1.36 7.99e-05 0.000712 abundance 1530 46 0.00016 0.000455
GGB1549_SGB2133 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.951 0.742 0.2 0.285 prevalence 1530 46 0.00016 0.000455
Dorea_longicatena age age age -0.277 0.0672 8.08e-05 0.000713 abundance 1530 1020 0.000162 0.000459
Dorea_longicatena age age age 0.00183 0.0582 0.975 0.98 prevalence 1530 1020 0.000162 0.000459
Candidatus_Cibionibacter_quicibialis diagnosis UC diagnosisUC 0.256 0.223 1 1 abundance 1530 933 0.000173 0.00049
Phocaeicola_plebeius age age age -0.205 0.258 1 1 abundance 1530 127 0.000173 0.00049
Candidatus_Cibionibacter_quicibialis diagnosis UC diagnosisUC -0.599 0.153 8.66e-05 0.00029 prevalence 1530 933 0.000173 0.00049
Phocaeicola_plebeius age age age 0.335 0.0854 8.67e-05 0.00029 prevalence 1530 127 0.000173 0.00049
Anaerostipes_hadrus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.692 0.536 0.0412 0.114 abundance 1530 1130 0.000175 0.000492
Anaerostipes_hadrus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.35 0.345 8.73e-05 0.000291 prevalence 1530 1130 0.000175 0.000492
Parabacteroides_merdae reads reads reads -0.0214 0.0816 9.23e-05 0.000806 abundance 1530 826 0.000185 0.000519
Parabacteroides_merdae reads reads reads 0.184 0.0562 0.00109 0.00287 prevalence 1530 826 0.000185 0.000519
GGB3746_SGB5089 diagnosis UC diagnosisUC 0.49 0.266 0.116 0.26 abundance 1530 651 0.000189 0.00053
GGB3746_SGB5089 diagnosis UC diagnosisUC -0.574 0.147 9.46e-05 0.000312 prevalence 1530 651 0.000189 0.00053
Clostridiaceae_bacterium diagnosis CD diagnosisCD 0.362 0.16 0.00712 0.0291 abundance 1530 1110 0.00019 0.000531
Clostridiaceae_bacterium diagnosis CD diagnosisCD -0.704 0.18 9.49e-05 0.000312 prevalence 1530 1110 0.00019 0.000531
Veillonella_dispar dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.86 0.53 9.54e-05 0.000826 abundance 1530 526 0.000191 0.000532
Veillonella_dispar dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.453 0.224 0.0432 0.0764 prevalence 1530 526 0.000191 0.000532
Parabacteroides_distasonis diagnosis CD diagnosisCD 0.506 0.148 0.000107 0.000903 abundance 1530 1140 0.000215 0.000597
Parabacteroides_distasonis diagnosis CD diagnosisCD 0.0153 0.161 0.924 0.948 prevalence 1530 1140 0.000215 0.000597
Roseburia_faecis antibiotics Yes antibioticsYes -0.943 0.359 0.0156 0.0543 abundance 1530 922 0.000231 0.000642
Roseburia_faecis antibiotics Yes antibioticsYes -0.706 0.183 0.000116 0.000375 prevalence 1530 922 0.000231 0.000642
Rikenellaceae_bacterium diagnosis CD diagnosisCD -1.15 0.314 0.000234 0.000715 prevalence 1530 67 0.000234 0.000647
Faecalibacterium_prausnitzii reads reads reads -0.232 0.0511 1 1 abundance 1530 1370 0.000238 0.000658
Faecalibacterium_prausnitzii reads reads reads 0.436 0.113 0.000119 0.000385 prevalence 1530 1370 0.000238 0.000658
Enterocloster_clostridioformis diagnosis UC diagnosisUC -1.96 0.522 0.000123 0.00102 abundance 1530 312 0.000245 0.000675
Enterocloster_clostridioformis diagnosis UC diagnosisUC -0.0877 0.198 0.658 0.737 prevalence 1530 312 0.000245 0.000675
GGB16040_SGB9347 diagnosis UC diagnosisUC 1.03 0.717 0.184 0.373 abundance 1530 114 0.00025 0.000685
Phocaeicola_massiliensis diagnosis CD diagnosisCD -0.946 0.398 0.0282 0.085 abundance 1530 396 0.00025 0.000685
GGB16040_SGB9347 diagnosis UC diagnosisUC 1.08 0.282 0.000125 0.000402 prevalence 1530 114 0.00025 0.000685
Phocaeicola_massiliensis diagnosis CD diagnosisCD -0.582 0.152 0.000125 0.000402 prevalence 1530 396 0.00025 0.000685
Phocaeicola_massiliensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -4.06 0.997 0.000138 0.00114 abundance 1530 396 0.000277 0.000756
Butyrivibrio_crossotus diagnosis CD diagnosisCD -2.25 0.62 0.000278 0.000826 prevalence 1530 43 0.000278 0.000756
Phocaeicola_massiliensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.03 0.346 0.00293 0.00704 prevalence 1530 396 0.000277 0.000756
Ruminococcus_torques dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.367 0.338 1 1 abundance 1530 1090 0.000292 0.000793
Ruminococcus_torques dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.809 0.213 0.000146 0.000467 prevalence 1530 1090 0.000292 0.000793
Clostridium_symbiosum reads reads reads -0.73 0.117 0.000996 0.00586 abundance 1530 539 0.000306 0.000828
Clostridium_symbiosum reads reads reads 0.215 0.0568 0.000153 0.000487 prevalence 1530 539 0.000306 0.000828
Prevotella_stercorea diagnosis UC diagnosisUC 2.75 0.761 0.000306 0.000901 prevalence 1530 40 0.000306 0.000828
Sutterella_wadsworthensis diagnosis UC diagnosisUC -0.504 0.228 0.0117 0.0428 abundance 1530 536 0.000308 0.000831
Sutterella_wadsworthensis diagnosis UC diagnosisUC -0.574 0.152 0.000154 0.000488 prevalence 1530 536 0.000308 0.000831
Blautia_wexlerae diagnosis CD diagnosisCD 0.555 0.164 0.000155 0.00127 abundance 1530 1300 0.000309 0.000832
Blautia_wexlerae diagnosis CD diagnosisCD -0.378 0.229 0.0994 0.156 prevalence 1530 1300 0.000309 0.000832
Clostridium_sp_AF36_4 antibiotics Yes antibioticsYes -1.05 0.421 0.0211 0.0682 abundance 1530 568 0.00033 0.000884
Clostridium_sp_AF36_4 antibiotics Yes antibioticsYes -0.857 0.227 0.000165 0.00052 prevalence 1530 568 0.00033 0.000884
Dysosmobacter_sp_BX15 reads reads reads -0.0829 0.0907 1 1 abundance 1530 621 0.000348 0.00093
Dysosmobacter_sp_BX15 reads reads reads 0.214 0.0569 0.000174 0.000547 prevalence 1530 621 0.000348 0.00093
Eisenbergiella_massiliensis age age age -0.645 0.168 0.000176 0.00141 abundance 1530 417 0.000352 0.00094
Eisenbergiella_massiliensis age age age 0.069 0.0591 0.243 0.333 prevalence 1530 417 0.000352 0.00094
Prevotella_copri_clade_B diagnosis CD diagnosisCD -5.63 1.32 0.000185 0.00145 abundance 1530 40 0.00037 0.000985
Prevotella_copri_clade_B diagnosis CD diagnosisCD -0.342 0.35 0.329 0.427 prevalence 1530 40 0.00037 0.000985
Bacteroides_eggerthii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -4.79 3.31 0.168 0.346 abundance 1530 409 0.000375 0.000995
Bacteroides_eggerthii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.55 0.683 0.000188 0.000588 prevalence 1530 409 0.000375 0.000995
Prevotella_copri_clade_E diagnosis UC diagnosisUC 2.71 0.762 0.000376 0.00107 prevalence 1530 38 0.000376 0.000995
Hungatella_hathewayi dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.75 0.524 0.000191 0.00148 abundance 1530 451 0.000382 0.00101
Hungatella_hathewayi dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.362 0.216 0.0941 0.149 prevalence 1530 451 0.000382 0.00101
Collinsella_aerofaciens reads reads reads -0.459 0.0919 1 1 abundance 1530 698 0.000384 0.00101
Collinsella_aerofaciens reads reads reads 0.207 0.0554 0.000192 0.000601 prevalence 1530 698 0.000384 0.00101
Paraprevotella_clara dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -6.6 1.67 0.000193 0.00149 abundance 1530 178 0.000386 0.00102
Paraprevotella_clara dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.54 0.577 0.00765 0.0167 prevalence 1530 178 0.000386 0.00102
Lachnospira_pectinoschiza dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.18 0.686 0.0423 0.116 abundance 1530 500 0.000389 0.00102
Lachnospira_pectinoschiza dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.12 0.3 0.000195 0.000607 prevalence 1530 500 0.000389 0.00102
Acidaminococcus_intestini antibiotics Yes antibioticsYes -1.35 0.488 0.00945 0.0365 abundance 1530 173 0.00041 0.00107
Acidaminococcus_intestini antibiotics Yes antibioticsYes 0.836 0.225 0.000205 0.000637 prevalence 1530 173 0.00041 0.00107
Blautia_obeum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.18 0.681 0.253 0.463 abundance 1530 899 0.00042 0.0011
Blautia_obeum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.31 0.353 0.00021 0.000651 prevalence 1530 899 0.00042 0.0011
Alistipes_putredinis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.719 1.21 0.353 0.592 abundance 1530 873 0.000424 0.0011
Alistipes_putredinis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.97 0.532 0.000212 0.000655 prevalence 1530 873 0.000424 0.0011
Dysosmobacter_sp_BX15 diagnosis CD diagnosisCD -0.0537 0.194 1 1 abundance 1530 621 0.000432 0.00112
Dysosmobacter_sp_BX15 diagnosis CD diagnosisCD -0.495 0.134 0.000216 0.000666 prevalence 1530 621 0.000432 0.00112
Phocaeicola_dorei dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.0661 0.998 0.776 1 abundance 1530 769 0.000448 0.00116
Phocaeicola_dorei dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.879 0.238 0.000224 0.000689 prevalence 1530 769 0.000448 0.00116
Fusicatenibacter_saccharivorans age age age -0.106 0.0685 1 1 abundance 1530 1120 0.000457 0.00118
Fusicatenibacter_saccharivorans age age age 0.261 0.0709 0.000228 7e-04 prevalence 1530 1120 0.000457 0.00118
GGB9480_SGB14874 age age age -0.448 0.117 0.000231 0.00172 abundance 1530 332 0.000461 0.00119
GGB9480_SGB14874 age age age 0.222 0.0618 0.000333 0.000972 prevalence 1530 332 0.000461 0.00119
Parasutterella_excrementihominis reads reads reads -0.378 0.102 1 1 abundance 1530 699 0.000474 0.00122
Veillonella_dispar diagnosis CD diagnosisCD -1.15 0.342 0.00171 0.00919 abundance 1530 526 0.000475 0.00122
Parasutterella_excrementihominis reads reads reads 0.205 0.0559 0.000237 0.000722 prevalence 1530 699 0.000474 0.00122
Veillonella_dispar diagnosis CD diagnosisCD -0.525 0.143 0.000238 0.000722 prevalence 1530 526 0.000475 0.00122
Anaerostipes_hadrus reads reads reads -0.481 0.0709 1 1 abundance 1530 1130 0.000486 0.00124
Anaerostipes_hadrus reads reads reads 0.245 0.0668 0.000243 0.000735 prevalence 1530 1130 0.000486 0.00124
Ruthenibacterium_lactatiformans age age age -0.00639 0.0959 1 1 abundance 1530 797 0.000494 0.00126
Ruthenibacterium_lactatiformans age age age 0.201 0.0548 0.000247 0.000746 prevalence 1530 797 0.000494 0.00126
Clostridium_sp_AT4 age age age 0.407 0.113 0.000251 0.00184 abundance 1530 528 0.000502 0.00128
Clostridium_sp_AT4 age age age -0.0376 0.0577 0.514 0.612 prevalence 1530 528 0.000502 0.00128
Bifidobacterium_adolescentis age age age 0.0641 0.151 1 1 abundance 1530 427 0.000508 0.00129
Bifidobacterium_adolescentis age age age -0.227 0.062 0.000254 0.000766 prevalence 1530 427 0.000508 0.00129
GGB1266_SGB1699 diagnosis UC diagnosisUC -1.47 0.932 0.103 0.237 abundance 1530 84 0.000524 0.00133
GGB1266_SGB1699 diagnosis UC diagnosisUC 1.17 0.321 0.000262 0.000786 prevalence 1530 84 0.000524 0.00133
GGB3278_SGB4328 diagnosis UC diagnosisUC -0.989 0.501 0.0356 0.103 abundance 1530 179 0.000545 0.00138
GGB3278_SGB4328 diagnosis UC diagnosisUC -0.749 0.206 0.000272 0.000816 prevalence 1530 179 0.000545 0.00138
Bacteroides_fragilis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 2.69 0.625 0.000277 0.002 abundance 1530 787 0.000554 0.00139
Clostridiaceae_bacterium_Marseille_Q4149 diagnosis CD diagnosisCD 0.472 0.563 0.338 0.58 abundance 1530 181 0.000553 0.00139
Bacteroides_fragilis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.498 0.336 0.139 0.208 prevalence 1530 787 0.000554 0.00139
Clostridiaceae_bacterium_Marseille_Q4149 diagnosis CD diagnosisCD -0.751 0.207 0.000277 0.000826 prevalence 1530 181 0.000553 0.00139
Bacteroides_ovatus diagnosis CD diagnosisCD 0.623 0.19 0.000281 0.002 abundance 1530 1180 0.000562 0.00141
Bacteroides_ovatus diagnosis CD diagnosisCD 0.182 0.165 0.268 0.36 prevalence 1530 1180 0.000562 0.00141
Lacrimispora_amygdalina diagnosis CD diagnosisCD 0.591 0.181 0.000283 0.002 abundance 1530 865 0.000565 0.00142
Lacrimispora_amygdalina diagnosis CD diagnosisCD -0.51 0.143 0.000363 0.00105 prevalence 1530 865 0.000565 0.00142
Haemophilus_parainfluenzae antibiotics Yes antibioticsYes 0.79 0.434 0.0473 0.128 abundance 1530 674 0.00057 0.00142
Haemophilus_parainfluenzae antibiotics Yes antibioticsYes -0.714 0.197 0.000285 0.000846 prevalence 1530 674 0.00057 0.00142
Clostridium_sp_AF34_10BH age age age 0.299 0.0851 0.000292 0.00205 abundance 1530 960 0.000584 0.00146
Clostridium_sp_AF34_10BH age age age 0.118 0.0614 0.0539 0.0934 prevalence 1530 960 0.000584 0.00146
Faecalibacterium_prausnitzii antibiotics Yes antibioticsYes -0.201 0.186 1 1 abundance 1530 1370 0.00059 0.00147
Faecalibacterium_prausnitzii antibiotics Yes antibioticsYes -1.01 0.279 0.000295 0.000873 prevalence 1530 1370 0.00059 0.00147
Candidatus_Cibionibacter_quicibialis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.888 0.805 0.109 0.249 abundance 1530 933 0.000593 0.00147
Candidatus_Cibionibacter_quicibialis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.37 0.379 0.000297 0.000876 prevalence 1530 933 0.000593 0.00147
Dysgonomonas_mossii diagnosis UC diagnosisUC -9 3.81 0.0254 0.0798 abundance 1530 31 0.000621 0.00154
Dysgonomonas_mossii diagnosis UC diagnosisUC -1.85 0.513 0.000311 0.000912 prevalence 1530 31 0.000621 0.00154
Bacteroides_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.77 1.49 0.018 0.0598 abundance 1530 158 0.000642 0.00159
Bacteroides_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.89 0.525 0.000321 0.00094 prevalence 1530 158 0.000642 0.00159
Bacteroides_fragilis antibiotics Yes antibioticsYes -1.24 0.407 0.0044 0.0196 abundance 1530 787 0.000675 0.00166
Bacteroides_fragilis antibiotics Yes antibioticsYes -0.655 0.183 0.000337 0.000982 prevalence 1530 787 0.000675 0.00166
Alistipes_onderdonkii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.782 2.8 0.892 1 abundance 1530 831 0.000681 0.00167
Alistipes_onderdonkii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.49 0.973 0.000341 0.000989 prevalence 1530 831 0.000681 0.00167
Gemmiger_formicilis reads reads reads -0.58 0.123 1 1 abundance 1530 472 0.000698 0.00171
Gemmiger_formicilis reads reads reads 0.216 0.0603 0.000349 0.00101 prevalence 1530 472 0.000698 0.00171
Parasutterella_excrementihominis antibiotics Yes antibioticsYes -0.386 0.336 0.352 0.592 abundance 1530 699 0.000728 0.00178
Parasutterella_excrementihominis antibiotics Yes antibioticsYes 0.672 0.188 0.000364 0.00105 prevalence 1530 699 0.000728 0.00178
Ruminococcus_bicirculans age age age 0.214 0.0963 1 1 abundance 1530 678 0.000733 0.00179
Ruminococcus_bicirculans age age age 0.194 0.0545 0.000366 0.00105 prevalence 1530 678 0.000733 0.00179
Clostridiaceae_bacterium_Marseille_Q4149 age age age 0.294 0.207 0.142 0.302 abundance 1530 181 0.000738 0.0018
Clostridiaceae_bacterium_Marseille_Q4149 age age age 0.262 0.0736 0.000369 0.00106 prevalence 1530 181 0.000738 0.0018
Bacteroides_intestinalis antibiotics Yes antibioticsYes 2.42 0.686 0.000385 0.00263 abundance 1530 158 0.000771 0.00187
Roseburia_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.59 0.507 0.000385 0.00263 abundance 1530 842 0.000771 0.00187
Bacteroides_intestinalis antibiotics Yes antibioticsYes 0.72 0.251 0.00412 0.00956 prevalence 1530 158 0.000771 0.00187
Roseburia_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.405 0.214 0.0576 0.0982 prevalence 1530 842 0.000771 0.00187
Enterocloster_clostridioformis diagnosis CD diagnosisCD 0.793 0.429 0.0456 0.124 abundance 1530 312 0.000782 0.00189
Enterocloster_clostridioformis diagnosis CD diagnosisCD 0.609 0.172 0.000391 0.00111 prevalence 1530 312 0.000782 0.00189
Dorea_longicatena dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.417 0.553 0.138 0.297 abundance 1530 1020 0.000795 0.00192
Dorea_longicatena dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.22 0.344 0.000397 0.00113 prevalence 1530 1020 0.000795 0.00192
GGB3278_SGB4328 age age age -0.729 0.199 0.000412 0.00277 abundance 1530 179 0.000824 0.00198
GGB3278_SGB4328 age age age 0.02 0.0787 0.8 0.846 prevalence 1530 179 0.000824 0.00198
Alistipes_dispar dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 8.43 2.17 0.000423 0.00282 abundance 1530 83 0.000846 0.00203
Alistipes_dispar dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.168 1.02 0.869 0.904 prevalence 1530 83 0.000846 0.00203
Bifidobacterium_adolescentis antibiotics Yes antibioticsYes -1.92 0.747 0.014 0.0499 abundance 1530 427 0.000923 0.00221
Bifidobacterium_adolescentis antibiotics Yes antibioticsYes -0.997 0.285 0.000462 0.0013 prevalence 1530 427 0.000923 0.00221
Dialister_invisus diagnosis UC diagnosisUC -0.788 0.245 0.000472 0.0031 abundance 1530 726 0.000945 0.00226
Dialister_invisus diagnosis UC diagnosisUC 0.0926 0.147 0.53 0.625 prevalence 1530 726 0.000945 0.00226
Veillonella_parvula diagnosis CD diagnosisCD 0.572 0.343 0.0619 0.16 abundance 1530 547 0.000965 0.0023
Veillonella_parvula diagnosis CD diagnosisCD -0.488 0.14 0.000483 0.00136 prevalence 1530 547 0.000965 0.0023
Akkermansia_muciniphila antibiotics Yes antibioticsYes -0.145 0.71 1 1 abundance 1530 407 0.000973 0.00232
Akkermansia_muciniphila antibiotics Yes antibioticsYes -0.871 0.25 0.000487 0.00137 prevalence 1530 407 0.000973 0.00232
Klebsiella_pneumoniae antibiotics Yes antibioticsYes 2.29 0.657 0.000488 0.00318 abundance 1530 119 0.000976 0.00232
Klebsiella_pneumoniae antibiotics Yes antibioticsYes 0.559 0.264 0.0342 0.0627 prevalence 1530 119 0.000976 0.00232
Bacteroides_finegoldii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.23 1.54 0.192 0.381 abundance 1530 333 0.000983 0.00233
Bacteroides_finegoldii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.64 0.47 0.000492 0.00137 prevalence 1530 333 0.000983 0.00233
Veillonella_dispar reads reads reads -0.847 0.144 0.000496 0.00321 abundance 1530 526 0.000991 0.00234
Veillonella_dispar reads reads reads 0.00485 0.0571 0.932 0.952 prevalence 1530 526 0.000991 0.00234
Alistipes_finegoldii reads reads reads 0.0511 0.112 0.000502 0.00323 abundance 1530 639 0.001 0.00237
Alistipes_finegoldii reads reads reads 0.144 0.0567 0.0112 0.0233 prevalence 1530 639 0.001 0.00237
Bacteroides_caecigallinarum diagnosis CD diagnosisCD 6.73 7.47 0.378 0.625 abundance 1530 21 0.00103 0.00242
Bifidobacterium_adolescentis diagnosis UC diagnosisUC 1.2 0.322 0.000515 0.00329 abundance 1530 427 0.00103 0.00242
Bacteroides_caecigallinarum diagnosis CD diagnosisCD -2.51 0.722 0.000515 0.00144 prevalence 1530 21 0.00103 0.00242
Bifidobacterium_adolescentis diagnosis UC diagnosisUC -0.242 0.149 0.105 0.162 prevalence 1530 427 0.00103 0.00242
Akkermansia_sp_KLE1798 reads reads reads 0.413 0.126 0.00105 0.00275 prevalence 1530 70 0.00105 0.00245
Rikenellaceae_bacterium reads reads reads 0.386 0.118 0.00105 0.00277 prevalence 1530 67 0.00105 0.00246
Bacteroides_xylanisolvens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.527 1.06 0.381 0.627 abundance 1530 959 0.00106 0.00246
Bacteroides_xylanisolvens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.25 0.36 0.000528 0.00147 prevalence 1530 959 0.00106 0.00246
Veillonella_rogosae antibiotics Yes antibioticsYes 2.98 0.867 0.000537 0.0034 abundance 1530 207 0.00107 0.0025
Veillonella_rogosae antibiotics Yes antibioticsYes -0.965 0.342 0.00474 0.0108 prevalence 1530 207 0.00107 0.0025
Eubacterium_siraeum diagnosis CD diagnosisCD -1.19 0.322 0.00054 0.0034 abundance 1530 565 0.00108 0.00251
Eubacterium_siraeum diagnosis CD diagnosisCD -0.456 0.135 0.000761 0.00205 prevalence 1530 565 0.00108 0.00251
Clostridium_sp_AF34_10BH dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.81 0.787 0.075 0.185 abundance 1530 960 0.00112 0.00259
Clostridium_sp_AF34_10BH dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.28 0.371 0.000559 0.00155 prevalence 1530 960 0.00112 0.00259
Bacteroides_xylanisolvens diagnosis CD diagnosisCD -0.0686 0.284 1 1 abundance 1530 959 0.00117 0.00271
Bacteroides_xylanisolvens diagnosis CD diagnosisCD 0.503 0.146 0.000585 0.00162 prevalence 1530 959 0.00117 0.00271
Bacteroides_fragilis reads reads reads -0.357 0.108 1 1 abundance 1530 787 0.00118 0.00272
Bacteroides_fragilis reads reads reads 0.187 0.0545 0.00059 0.00163 prevalence 1530 787 0.00118 0.00272
Roseburia_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.582 0.411 0.376 0.623 abundance 1530 922 0.00127 0.00293
Roseburia_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.726 0.212 0.000635 0.00174 prevalence 1530 922 0.00127 0.00293
Lachnospira_eligens diagnosis CD diagnosisCD 0.201 0.214 0.206 0.399 abundance 1530 929 0.00136 0.00313
Lachnospira_eligens diagnosis CD diagnosisCD -0.48 0.141 0.00068 0.00186 prevalence 1530 929 0.00136 0.00313
Ruminococcus_lactaris reads reads reads -0.286 0.127 1 1 abundance 1530 379 0.00138 0.00316
Ruminococcus_lactaris reads reads reads 0.215 0.0633 0.000689 0.00188 prevalence 1530 379 0.00138 0.00316
Lacrimispora_celerecrescens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.798 0.631 0.532 0.824 abundance 1530 756 0.0014 0.00321
Lacrimispora_celerecrescens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.22 0.359 0.000701 0.00191 prevalence 1530 756 0.0014 0.00321
Alistipes_shahii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.794 1.45 0.787 1 abundance 1530 673 0.00143 0.00326
Roseburia_intestinalis diagnosis CD diagnosisCD -0.169 0.273 1 1 abundance 1530 842 0.00143 0.00326
Alistipes_shahii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.43 0.717 0.000715 0.00194 prevalence 1530 673 0.00143 0.00326
Roseburia_intestinalis diagnosis CD diagnosisCD -0.457 0.135 0.000715 0.00194 prevalence 1530 842 0.00143 0.00326
Bilophila_wadsworthia age age age -0.278 0.0789 0.000753 0.00464 abundance 1530 764 0.00151 0.00342
Bilophila_wadsworthia age age age 0.176 0.0562 0.00179 0.00452 prevalence 1530 764 0.00151 0.00342
Dialister_invisus diagnosis CD diagnosisCD -0.0691 0.216 1 1 abundance 1530 726 0.00152 0.00345
Dialister_invisus diagnosis CD diagnosisCD 0.46 0.137 0.000762 0.00205 prevalence 1530 726 0.00152 0.00345
GGB781_SGB1024 age age age 0.598 0.189 0.00152 0.00393 prevalence 1530 18 0.00152 0.00345
Alistipes_communis antibiotics Yes antibioticsYes -0.0777 0.485 1 1 abundance 1530 407 0.00154 0.00347
Alistipes_communis antibiotics Yes antibioticsYes -0.824 0.245 0.000768 0.00207 prevalence 1530 407 0.00154 0.00347
Odoribacter_splanchnicus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.435 1.27 1 1 abundance 1530 757 0.00155 0.00349
Odoribacter_splanchnicus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.42 0.719 0.000774 0.00208 prevalence 1530 757 0.00155 0.00349
Bifidobacterium_longum diagnosis UC diagnosisUC 0.00133 0.244 1 1 abundance 1530 843 0.00159 0.00358
Lachnospira_pectinoschiza antibiotics Yes antibioticsYes -1.57 0.501 0.00291 0.014 abundance 1530 500 0.00159 0.00358
Bifidobacterium_longum diagnosis UC diagnosisUC 0.523 0.156 0.000796 0.00213 prevalence 1530 843 0.00159 0.00358
Lachnospira_pectinoschiza antibiotics Yes antibioticsYes -0.762 0.227 0.000797 0.00213 prevalence 1530 500 0.00159 0.00358
Bacteroides_caecigallinarum diagnosis UC diagnosisUC -9.26 2.2 0.000811 0.0049 abundance 1530 21 0.00162 0.00363
Bacteroides_caecigallinarum diagnosis UC diagnosisUC -1.42 0.571 0.0128 0.0266 prevalence 1530 21 0.00162 0.00363
Alistipes_putredinis reads reads reads -0.194 0.0819 1 1 abundance 1530 873 0.00173 0.00386
Alistipes_putredinis reads reads reads 0.197 0.0593 0.000865 0.0023 prevalence 1530 873 0.00173 0.00386
Bilophila_wadsworthia dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.812 2.26 0.591 0.899 abundance 1530 764 0.00176 0.00392
Bilophila_wadsworthia dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.25 0.977 0.000879 0.00233 prevalence 1530 764 0.00176 0.00392
Phocaeicola_coprocola antibiotics Yes antibioticsYes -4.66 1.34 0.000899 0.00539 abundance 1530 101 0.0018 0.004
Phocaeicola_coprocola antibiotics Yes antibioticsYes -0.597 0.402 0.138 0.207 prevalence 1530 101 0.0018 0.004
Phocaeicola_vulgatus reads reads reads -0.193 0.0985 1 1 abundance 1530 1290 0.00184 0.00408
Phocaeicola_vulgatus reads reads reads 0.267 0.0804 0.00092 0.00244 prevalence 1530 1290 0.00184 0.00408
Bifidobacterium_adolescentis reads reads reads -0.629 0.14 0.0408 0.113 abundance 1530 427 0.00199 0.00442
Bifidobacterium_adolescentis reads reads reads 0.202 0.0614 0.000997 0.00263 prevalence 1530 427 0.00199 0.00442
Prevotella_copri_clade_A diagnosis CD diagnosisCD -2.36 0.694 0.00109 0.00635 abundance 1530 289 0.00217 0.0048
Prevotella_copri_clade_A diagnosis CD diagnosisCD -0.481 0.164 0.00336 0.00797 prevalence 1530 289 0.00217 0.0048
Ruminococcus_bicirculans antibiotics Yes antibioticsYes -1.06 0.443 0.0259 0.0802 abundance 1530 678 0.00221 0.00487
Ruminococcus_bicirculans antibiotics Yes antibioticsYes -0.651 0.2 0.0011 0.00289 prevalence 1530 678 0.00221 0.00487
Phocaeicola_coprocola dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -5.44 1.56 0.00114 0.00663 abundance 1530 101 0.00228 0.00503
Phocaeicola_coprocola dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.775 0.474 0.102 0.159 prevalence 1530 101 0.00228 0.00503
Barnesiella_intestinihominis reads reads reads 0.0409 0.132 0.00385 0.0178 abundance 1530 431 0.00237 0.0052
Barnesiella_intestinihominis reads reads reads 0.197 0.0608 0.00118 0.00309 prevalence 1530 431 0.00237 0.0052
Alistipes_finegoldii age age age -0.349 0.104 0.00122 0.00701 abundance 1530 639 0.00244 0.00536
Alistipes_finegoldii age age age -0.0693 0.0554 0.211 0.297 prevalence 1530 639 0.00244 0.00536
Ruminococcus_lactaris dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.741 1.22 0.433 0.697 abundance 1530 379 0.00271 0.00593
Ruminococcus_lactaris dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.63 0.508 0.00136 0.00353 prevalence 1530 379 0.00271 0.00593
Acidaminococcus_intestini dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.372 0.853 0.489 0.766 abundance 1530 173 0.00272 0.00595
Acidaminococcus_intestini dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.19 0.372 0.00136 0.00354 prevalence 1530 173 0.00272 0.00595
Candidatus_Cibionibacter_quicibialis age age age 0.261 0.0846 0.00137 0.00775 abundance 1530 933 0.00274 0.00597
Candidatus_Cibionibacter_quicibialis age age age 0.108 0.0573 0.0603 0.101 prevalence 1530 933 0.00274 0.00597
GGB51647_SGB4348 diagnosis CD diagnosisCD 0.566 0.61 0.3 0.527 abundance 1530 123 0.0028 0.00608
GGB51647_SGB4348 diagnosis CD diagnosisCD -0.758 0.237 0.0014 0.00363 prevalence 1530 123 0.0028 0.00608
Odoribacter_splanchnicus diagnosis CD diagnosisCD 0.418 0.152 0.00145 0.00813 abundance 1530 757 0.00291 0.00631
Odoribacter_splanchnicus diagnosis CD diagnosisCD -0.2 0.136 0.142 0.212 prevalence 1530 757 0.00291 0.00631
Dysosmobacter_sp_BX15 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.85 1.02 0.0271 0.0832 abundance 1530 621 0.00311 0.00674
Dysosmobacter_sp_BX15 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.69 0.533 0.00156 0.00401 prevalence 1530 621 0.00311 0.00674
Alistipes_SGB2313 diagnosis CD diagnosisCD -2.83 0.837 0.00157 0.00868 abundance 1530 73 0.00314 0.00679
Alistipes_SGB2313 diagnosis CD diagnosisCD -0.548 0.307 0.0744 0.121 prevalence 1530 73 0.00314 0.00679
Prevotella_marseillensis antibiotics Yes antibioticsYes 1.6 0.543 0.00321 0.00768 prevalence 1530 18 0.00321 0.00693
Bifidobacterium_longum reads reads reads -0.645 0.0959 0.00161 0.00875 abundance 1530 843 0.00323 0.00694
Bifidobacterium_longum reads reads reads 0.171 0.057 0.00262 0.00635 prevalence 1530 843 0.00323 0.00694
GGB3478_SGB14857 antibiotics Yes antibioticsYes 5.02 1.77 0.0182 0.0599 abundance 1530 16 0.00324 0.00696
GGB3478_SGB14857 antibiotics Yes antibioticsYes 1.58 0.501 0.00162 0.00417 prevalence 1530 16 0.00324 0.00696
Parasutterella_SGB9260 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.65 1.28 0.0579 0.153 abundance 1530 269 0.00325 0.00697
Parasutterella_SGB9260 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.81 0.574 0.00163 0.00417 prevalence 1530 269 0.00325 0.00697
Clostridium_leptum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.706 0.973 0.756 1 abundance 1530 652 0.00339 0.00726
Clostridium_leptum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.35 0.43 0.0017 0.00433 prevalence 1530 652 0.00339 0.00726
Clostridium_fessum antibiotics Yes antibioticsYes -0.435 0.283 0.2 0.393 abundance 1530 926 0.00342 0.00729
Clostridium_fessum antibiotics Yes antibioticsYes -0.62 0.198 0.00171 0.00435 prevalence 1530 926 0.00342 0.00729
Phocaeicola_massiliensis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.0915 1.77 0.78 1 abundance 1530 396 0.00347 0.00739
Phocaeicola_massiliensis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.88 0.601 0.00173 0.00441 prevalence 1530 396 0.00347 0.00739
Bacteroides_thetaiotaomicron antibiotics Yes antibioticsYes 0.991 0.339 0.00174 0.00935 abundance 1530 1060 0.00349 0.00741
Bacteroides_thetaiotaomicron antibiotics Yes antibioticsYes -0.0976 0.204 0.632 0.714 prevalence 1530 1060 0.00349 0.00741
Haemophilus_parainfluenzae diagnosis CD diagnosisCD -0.184 0.263 1 1 abundance 1530 674 0.00351 0.00745
Parasutterella_excrementihominis diagnosis UC diagnosisUC 0.836 0.243 0.00176 0.00935 abundance 1530 699 0.00351 0.00745
Haemophilus_parainfluenzae diagnosis CD diagnosisCD -0.427 0.137 0.00176 0.00446 prevalence 1530 674 0.00351 0.00745
Parasutterella_excrementihominis diagnosis UC diagnosisUC 0.0636 0.145 0.66 0.738 prevalence 1530 699 0.00351 0.00745
Waltera_intestinalis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.06 2.23 0.767 1 abundance 1530 524 0.00363 0.00767
Waltera_intestinalis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.24 0.719 0.00182 0.00458 prevalence 1530 524 0.00363 0.00767
Alistipes_dispar diagnosis UC diagnosisUC -1.12 0.739 0.111 0.253 abundance 1530 83 0.00364 0.00767
Alistipes_dispar diagnosis UC diagnosisUC -1.11 0.356 0.00182 0.00458 prevalence 1530 83 0.00364 0.00767
GGB9480_SGB14874 diagnosis UC diagnosisUC -0.279 0.349 0.314 0.549 abundance 1530 332 0.00374 0.00787
GGB9480_SGB14874 diagnosis UC diagnosisUC -0.557 0.179 0.00187 0.0047 prevalence 1530 332 0.00374 0.00787
Flavonifractor_plautii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.01 0.485 0.211 0.407 abundance 1530 1220 0.00376 0.00789
Flavonifractor_plautii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.14 0.366 0.00188 0.00471 prevalence 1530 1220 0.00376 0.00789
Escherichia_coli age age age 0.361 0.119 0.00191 0.00998 abundance 1530 707 0.00381 0.00799
Escherichia_coli age age age -0.0974 0.0537 0.0698 0.115 prevalence 1530 707 0.00381 0.00799
Ruminococcus_gnavus diagnosis UC diagnosisUC -0.495 0.289 0.0498 0.134 abundance 1530 767 0.00387 0.0081
Ruminococcus_gnavus diagnosis UC diagnosisUC 0.455 0.147 0.00194 0.00484 prevalence 1530 767 0.00387 0.0081
Bifidobacterium_adolescentis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.41 1.61 0.261 0.471 abundance 1530 427 0.0039 0.00815
Bifidobacterium_adolescentis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.87 0.603 0.00195 0.00487 prevalence 1530 427 0.0039 0.00815
Akkermansia_muciniphila reads reads reads -0.481 0.16 1 1 abundance 1530 407 0.00398 0.00831
Akkermansia_muciniphila reads reads reads 0.193 0.0624 0.00199 0.00495 prevalence 1530 407 0.00398 0.00831
Veillonella_rogosae reads reads reads -0.987 0.207 0.00207 0.0107 abundance 1530 207 0.00413 0.00858
Veillonella_rogosae reads reads reads 0.0304 0.0778 0.696 0.768 prevalence 1530 207 0.00413 0.00858
Proteus_mirabilis diagnosis CD diagnosisCD -1.64 0.864 0.0722 0.18 abundance 1530 100 0.00414 0.00859
Vescimonas_coprocola dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.45 1.39 0.181 0.369 abundance 1530 599 0.00415 0.00859
Proteus_mirabilis diagnosis CD diagnosisCD -0.874 0.284 0.00207 0.00513 prevalence 1530 100 0.00414 0.00859
Vescimonas_coprocola dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.85 0.602 0.00208 0.00513 prevalence 1530 599 0.00415 0.00859
Waltera_intestinalis age age age 0.389 0.139 0.00418 0.0189 abundance 1530 524 0.00418 0.00864
Waltera_intestinalis age age age 0.172 0.0559 0.00209 0.00515 prevalence 1530 524 0.00418 0.00864
Bacteroides_faecis antibiotics Yes antibioticsYes -1.41 0.77 0.0836 0.201 abundance 1530 434 0.00435 0.00898
Bacteroides_faecis antibiotics Yes antibioticsYes -0.737 0.24 0.00218 0.00535 prevalence 1530 434 0.00435 0.00898
Clostridium_sp_AM49_4BH antibiotics Yes antibioticsYes -0.118 0.829 1 1 abundance 1530 344 0.00447 0.00921
Clostridium_sp_AM49_4BH antibiotics Yes antibioticsYes -1.05 0.342 0.00224 0.00549 prevalence 1530 344 0.00447 0.00921
Clostridium_sp_AM22_11AC dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.02 0.796 0.441 0.704 abundance 1530 730 0.00457 0.00939
Clostridium_sp_AM22_11AC dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.16 0.381 0.00229 0.00559 prevalence 1530 730 0.00457 0.00939
Phocaeicola_vulgatus age age age -0.308 0.0973 0.00233 0.0119 abundance 1530 1290 0.00466 0.00956
Phocaeicola_vulgatus age age age 0.0112 0.0783 0.886 0.92 prevalence 1530 1290 0.00466 0.00956
Prevotella_copri_clade_B antibiotics Yes antibioticsYes -8.34 2.51 0.0024 0.0121 abundance 1530 40 0.00479 0.00982
Prevotella_copri_clade_B antibiotics Yes antibioticsYes -1.29 0.889 0.146 0.216 prevalence 1530 40 0.00479 0.00982
Lacrimispora_celerecrescens antibiotics Yes antibioticsYes 0.809 0.29 0.00244 0.0122 abundance 1530 756 0.00488 0.00998
Lacrimispora_celerecrescens antibiotics Yes antibioticsYes 0.05 0.191 0.793 0.842 prevalence 1530 756 0.00488 0.00998
Proteus_mirabilis age age age 0.275 0.551 1 1 abundance 1530 100 0.00494 0.0101
Proteus_mirabilis age age age -0.382 0.126 0.00247 0.00602 prevalence 1530 100 0.00494 0.0101
Bacteroides_salyersiae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -4.07 1.25 0.0025 0.0123 abundance 1530 150 0.00498 0.0102
Bacteroides_salyersiae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.5 0.526 0.00434 0.00995 prevalence 1530 150 0.00498 0.0102
Akkermansia_sp_KLE1798 age age age -0.397 0.142 0.0051 0.0115 prevalence 1530 70 0.0051 0.0104
Bacteroides_eggerthii diagnosis UC diagnosisUC 0.278 0.587 1 1 abundance 1530 409 0.00515 0.0105
Bacteroides_eggerthii diagnosis UC diagnosisUC -0.467 0.155 0.00258 0.00627 prevalence 1530 409 0.00515 0.0105
Bacteroides_ovatus antibiotics Yes antibioticsYes 0.712 0.26 0.00264 0.013 abundance 1530 1180 0.00527 0.0107
Bacteroides_ovatus antibiotics Yes antibioticsYes 0.226 0.226 0.317 0.415 prevalence 1530 1180 0.00527 0.0107
Waltera_intestinalis reads reads reads -0.629 0.152 0.0597 0.156 abundance 1530 524 0.00558 0.0113
Waltera_intestinalis reads reads reads 0.175 0.0586 0.0028 0.00676 prevalence 1530 524 0.00558 0.0113
Collinsella_SGB14861 age age age -0.297 0.0956 0.00284 0.0139 abundance 1530 593 0.00568 0.0115
GGB9453_SGB14844 diagnosis UC diagnosisUC -1.29 0.45 0.00285 0.0139 abundance 1530 222 0.00569 0.0115
Collinsella_SGB14861 age age age 0.0721 0.0552 0.191 0.273 prevalence 1530 593 0.00568 0.0115
GGB9453_SGB14844 diagnosis UC diagnosisUC 0.202 0.193 0.296 0.391 prevalence 1530 222 0.00569 0.0115
Phascolarctobacterium_faecium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.504 1.35 0.502 0.785 abundance 1530 503 0.0058 0.0117
Phascolarctobacterium_faecium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.8 0.606 0.0029 0.00699 prevalence 1530 503 0.0058 0.0117
Ruminococcus_torques diagnosis UC diagnosisUC 0.575 0.197 0.011 0.0412 abundance 1530 1090 0.0059 0.0118
Ruminococcus_torques diagnosis UC diagnosisUC -0.519 0.175 0.00296 0.00709 prevalence 1530 1090 0.0059 0.0118
Paraprevotella_clara age age age -0.889 0.293 0.00315 0.0151 abundance 1530 178 0.00629 0.0126
Paraprevotella_clara age age age -0.187 0.0866 0.031 0.0578 prevalence 1530 178 0.00629 0.0126
Alistipes_communis diagnosis CD diagnosisCD -0.831 0.257 0.00323 0.0153 abundance 1530 407 0.00645 0.0129
Alistipes_communis diagnosis CD diagnosisCD 0.133 0.143 0.355 0.453 prevalence 1530 407 0.00645 0.0129
Parabacteroides_merdae diagnosis UC diagnosisUC -0.516 0.199 0.00324 0.0153 abundance 1530 826 0.00648 0.0129
Parabacteroides_merdae diagnosis UC diagnosisUC 0.301 0.146 0.04 0.0715 prevalence 1530 826 0.00648 0.0129
Waltera_intestinalis antibiotics Yes antibioticsYes 0.296 0.624 0.555 0.855 abundance 1530 524 0.0065 0.0129
Waltera_intestinalis antibiotics Yes antibioticsYes -0.672 0.228 0.00325 0.00776 prevalence 1530 524 0.0065 0.0129
Phocaeicola_coprocola age age age 0.232 0.382 1 1 abundance 1530 101 0.00652 0.013
Phocaeicola_coprocola age age age 0.288 0.098 0.00327 0.00777 prevalence 1530 101 0.00652 0.013
Alistipes_finegoldii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 4.82 2.51 0.0791 0.192 abundance 1530 639 0.00663 0.0131
Alistipes_finegoldii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.86 0.974 0.00332 0.00789 prevalence 1530 639 0.00663 0.0131
Prevotella_marseillensis diagnosis UC diagnosisUC 2.13 0.785 0.00666 0.0147 prevalence 1530 18 0.00666 0.0132
Eisenbergiella_massiliensis reads reads reads -0.6 0.156 0.0994 0.232 abundance 1530 417 0.00686 0.0135
Eisenbergiella_massiliensis reads reads reads 0.173 0.0591 0.00343 0.00812 prevalence 1530 417 0.00686 0.0135
Phocaeicola_sartorii antibiotics Yes antibioticsYes -0.117 0.446 1 1 abundance 1530 424 0.00705 0.0139
Ruminococcus_lactaris dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.0151 2.41 0.862 1 abundance 1530 379 0.00706 0.0139
Phocaeicola_sartorii antibiotics Yes antibioticsYes 0.615 0.211 0.00353 0.00832 prevalence 1530 424 0.00705 0.0139
Ruminococcus_lactaris dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.84 0.975 0.00353 0.00832 prevalence 1530 379 0.00706 0.0139
Firmicutes_bacterium_AF16_15 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.16 0.986 0.113 0.256 abundance 1530 827 0.00707 0.0139
Firmicutes_bacterium_AF16_15 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.26 0.433 0.00354 0.00832 prevalence 1530 827 0.00707 0.0139
Bacteroides_finegoldii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -9.3 3.32 0.00375 0.0174 abundance 1530 333 0.00748 0.0147
Bacteroides_finegoldii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.53 0.977 0.00968 0.0207 prevalence 1530 333 0.00748 0.0147
Clostridiaceae_bacterium antibiotics Yes antibioticsYes -0.0144 0.254 1 1 abundance 1530 1110 0.00763 0.0149
Clostridiaceae_bacterium antibiotics Yes antibioticsYes -0.568 0.196 0.00382 0.00893 prevalence 1530 1110 0.00763 0.0149
Ruminococcus_torques antibiotics Yes antibioticsYes 0.175 0.248 1 1 abundance 1530 1090 0.00768 0.015
Ruminococcus_torques antibiotics Yes antibioticsYes 0.619 0.214 0.00385 0.00897 prevalence 1530 1090 0.00768 0.015
Dorea_longicatena diagnosis CD diagnosisCD 0.41 0.165 0.00388 0.0178 abundance 1530 1020 0.00775 0.0151
Dorea_longicatena diagnosis CD diagnosisCD -0.0966 0.149 0.517 0.613 prevalence 1530 1020 0.00775 0.0151
Gemmiger_formicilis age age age -0.394 0.132 0.00394 0.018 abundance 1530 472 0.00787 0.0153
Gemmiger_formicilis age age age -0.132 0.0601 0.0286 0.0537 prevalence 1530 472 0.00787 0.0153
Clostridium_sp_AM49_4BH dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.341 1.82 0.759 1 abundance 1530 344 0.00795 0.0154
Clostridium_sp_AM49_4BH dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.97 0.684 0.00398 0.00927 prevalence 1530 344 0.00795 0.0154
GGB3278_SGB4328 antibiotics Yes antibioticsYes 0.0294 1.56 1 1 abundance 1530 179 0.00831 0.0161
GGB3278_SGB4328 antibiotics Yes antibioticsYes -1.61 0.564 0.00416 0.00965 prevalence 1530 179 0.00831 0.0161
Proteus_mirabilis antibiotics Yes antibioticsYes 2.78 0.972 0.00417 0.0189 abundance 1530 100 0.00833 0.0161
Proteus_mirabilis antibiotics Yes antibioticsYes -0.0304 0.342 0.929 0.951 prevalence 1530 100 0.00833 0.0161
Lacrimispora_amygdalina antibiotics Yes antibioticsYes -0.37 0.298 0.318 0.555 abundance 1530 865 0.00855 0.0165
Lacrimispora_amygdalina antibiotics Yes antibioticsYes -0.554 0.194 0.00428 0.0099 prevalence 1530 865 0.00855 0.0165
Eubacterium_ventriosum reads reads reads -0.305 0.117 1 1 abundance 1530 520 0.00859 0.0166
GGB16040_SGB9347 reads reads reads -0.224 0.242 1 1 abundance 1530 114 0.0086 0.0166
Eubacterium_ventriosum reads reads reads 0.165 0.0577 0.00431 0.00992 prevalence 1530 520 0.00859 0.0166
GGB16040_SGB9347 reads reads reads 0.288 0.101 0.00431 0.00992 prevalence 1530 114 0.0086 0.0166
Coprococcus_eutactus antibiotics Yes antibioticsYes -2.98 1.01 0.00432 0.0194 abundance 1530 177 0.00862 0.0166
Coprococcus_eutactus antibiotics Yes antibioticsYes -0.664 0.403 0.0993 0.156 prevalence 1530 177 0.00862 0.0166
Bifidobacterium_longum diagnosis CD diagnosisCD 0.607 0.237 0.00441 0.0196 abundance 1530 843 0.0088 0.0169
Bifidobacterium_longum diagnosis CD diagnosisCD -0.298 0.14 0.0336 0.0618 prevalence 1530 843 0.0088 0.0169
GGB9453_SGB14844 reads reads reads -0.928 0.204 0.00443 0.0196 abundance 1530 222 0.00883 0.0169
GGB9453_SGB14844 reads reads reads 0.00265 0.0748 0.972 0.979 prevalence 1530 222 0.00883 0.0169
GGB3277_SGB4327 diagnosis UC diagnosisUC 1.55 0.51 0.00446 0.0197 abundance 1530 152 0.00889 0.017
GGB3277_SGB4327 diagnosis UC diagnosisUC 0.152 0.225 0.5 0.599 prevalence 1530 152 0.00889 0.017
Prevotella_sp_885 antibiotics Yes antibioticsYes -4.39 1.46 0.0045 0.0198 abundance 1530 69 0.00898 0.0171
Prevotella_sp_885 antibiotics Yes antibioticsYes -0.0491 0.396 0.901 0.931 prevalence 1530 69 0.00898 0.0171
Roseburia_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.0606 0.852 0.586 0.894 abundance 1530 922 0.00942 0.0179
Roseburia_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.05 0.372 0.00472 0.0108 prevalence 1530 922 0.00942 0.0179
Bacteroides_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 5.21 1.7 0.00485 0.021 abundance 1530 434 0.00967 0.0184
Bacteroides_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.767 0.5 0.125 0.191 prevalence 1530 434 0.00967 0.0184
Ruminococcus_gnavus reads reads reads -0.599 0.101 0.0107 0.0405 abundance 1530 767 0.00978 0.0186
Ruminococcus_gnavus reads reads reads 0.153 0.0544 0.0049 0.0112 prevalence 1530 767 0.00978 0.0186
GGB1680_SGB2312 diagnosis UC diagnosisUC -2.93 1.14 0.00993 0.021 prevalence 1530 12 0.00993 0.0188
GGB3175_SGB4191 age age age -0.118 0.264 1 1 abundance 1530 154 0.00996 0.0188
GGB3175_SGB4191 age age age 0.227 0.0809 0.00499 0.0113 prevalence 1530 154 0.00996 0.0188
Eubacterium_siraeum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.21 1.92 0.174 0.355 abundance 1530 565 0.01 0.0189
Eubacterium_siraeum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.69 0.603 0.00502 0.0114 prevalence 1530 565 0.01 0.0189
Escherichia_coli dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.719 0.619 0.61 0.922 abundance 1530 707 0.0101 0.019
Escherichia_coli dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.984 0.351 0.00505 0.0114 prevalence 1530 707 0.0101 0.019
Paraprevotella_clara reads reads reads 0.189 0.24 0.028 0.0844 abundance 1530 178 0.0102 0.0193
Paraprevotella_clara reads reads reads 0.223 0.0799 0.00514 0.0116 prevalence 1530 178 0.0102 0.0193
Flavonifractor_plautii antibiotics Yes antibioticsYes 0.606 0.242 0.00517 0.0222 abundance 1530 1220 0.0103 0.0194
Flavonifractor_plautii antibiotics Yes antibioticsYes -0.239 0.216 0.268 0.36 prevalence 1530 1220 0.0103 0.0194
Clostridiales_bacterium diagnosis CD diagnosisCD 0.23 0.179 0.096 0.224 abundance 1530 985 0.0105 0.0198
Clostridiales_bacterium diagnosis CD diagnosisCD -0.433 0.155 0.00529 0.0119 prevalence 1530 985 0.0105 0.0198
GGB3278_SGB4328 reads reads reads -0.101 0.238 1 1 abundance 1530 179 0.0106 0.0199
GGB3278_SGB4328 reads reads reads 0.229 0.0823 0.00532 0.0119 prevalence 1530 179 0.0106 0.0199
Dialister_invisus reads reads reads -0.31 0.088 1 1 abundance 1530 726 0.0106 0.0199
Dialister_invisus reads reads reads 0.153 0.0551 0.00533 0.0119 prevalence 1530 726 0.0106 0.0199
GGB781_SGB1024 diagnosis CD diagnosisCD 1.99 0.782 0.0111 0.0233 prevalence 1530 18 0.0111 0.0207
Clostridium_sp_1001270H_150608_G6 age age age 0.594 0.298 0.044 0.12 abundance 1530 141 0.0112 0.0208
GGB3304_SGB4367 diagnosis CD diagnosisCD 0.17 0.505 1 1 abundance 1530 155 0.0112 0.0208
Clostridium_sp_1001270H_150608_G6 age age age 0.232 0.0836 0.00562 0.0125 prevalence 1530 141 0.0112 0.0208
GGB3304_SGB4367 diagnosis CD diagnosisCD -0.607 0.219 0.00562 0.0125 prevalence 1530 155 0.0112 0.0208
Lachnospira_sp_NSJ_43 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.11 1.85 0.119 0.267 abundance 1530 296 0.0117 0.0216
Lachnospira_sp_NSJ_43 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.9 0.688 0.00585 0.013 prevalence 1530 296 0.0117 0.0216
Bacteroides_fragilis age age age -0.0491 0.113 1 1 abundance 1530 787 0.012 0.0223
Bacteroides_fragilis age age age -0.147 0.0535 0.00603 0.0134 prevalence 1530 787 0.012 0.0223
Eubacterium_siraeum reads reads reads -0.755 0.15 0.0061 0.0256 abundance 1530 565 0.0122 0.0225
Eubacterium_siraeum reads reads reads 0.154 0.058 0.00774 0.0168 prevalence 1530 565 0.0122 0.0225
GGB9713_SGB15249 reads reads reads 0.129 0.171 0.0063 0.0264 abundance 1530 329 0.0126 0.0232
GGB9713_SGB15249 reads reads reads 0.143 0.0683 0.0368 0.0666 prevalence 1530 329 0.0126 0.0232
Blautia_faecis diagnosis CD diagnosisCD 0.406 0.175 0.0068 0.0283 abundance 1530 1120 0.0136 0.025
Blautia_faecis diagnosis CD diagnosisCD 0.0798 0.161 0.621 0.705 prevalence 1530 1120 0.0136 0.025
Alistipes_SGB2313 diagnosis UC diagnosisUC -2.2 0.817 0.00705 0.029 abundance 1530 73 0.0141 0.0258
Alistipes_SGB2313 diagnosis UC diagnosisUC -0.588 0.31 0.0576 0.0982 prevalence 1530 73 0.0141 0.0258
Tyzzerella_nexilis antibiotics Yes antibioticsYes 1.7 0.841 0.0369 0.105 abundance 1530 188 0.0141 0.026
Tyzzerella_nexilis antibiotics Yes antibioticsYes -0.918 0.341 0.0071 0.0157 prevalence 1530 188 0.0141 0.026
Haemophilus_parainfluenzae reads reads reads -0.63 0.107 0.0072 0.0293 abundance 1530 674 0.0144 0.0263
Haemophilus_parainfluenzae reads reads reads 0.0457 0.0545 0.401 0.501 prevalence 1530 674 0.0144 0.0263
Eubacterium_ventriosum diagnosis UC diagnosisUC 0.0724 0.274 1 1 abundance 1530 520 0.0145 0.0264
Eubacterium_ventriosum diagnosis UC diagnosisUC -0.39 0.145 0.00726 0.016 prevalence 1530 520 0.0145 0.0264
Rikenellaceae_bacterium diagnosis UC diagnosisUC -0.747 0.307 0.0149 0.0299 prevalence 1530 67 0.0149 0.0271
Ruminococcus_gnavus antibiotics Yes antibioticsYes -0.137 0.304 1 1 abundance 1530 767 0.0152 0.0277
Ruminococcus_gnavus antibiotics Yes antibioticsYes 0.491 0.184 0.00763 0.0167 prevalence 1530 767 0.0152 0.0277
Bacteroides_caccae age age age -0.0856 0.0698 1 1 abundance 1530 958 0.0154 0.028
Proteus_mirabilis diagnosis UC diagnosisUC -1.02 1.02 0.288 0.51 abundance 1530 100 0.0154 0.028
Roseburia_hominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.46 0.791 0.183 0.372 abundance 1530 876 0.0154 0.028
Bacteroides_caccae age age age 0.154 0.058 0.00774 0.0168 prevalence 1530 958 0.0154 0.028
Proteus_mirabilis diagnosis UC diagnosisUC -0.863 0.324 0.00775 0.0168 prevalence 1530 100 0.0154 0.028
Roseburia_hominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.998 0.375 0.00772 0.0168 prevalence 1530 876 0.0154 0.028
GGB1680_SGB2312 diagnosis CD diagnosisCD -1.87 0.777 0.0159 0.0318 prevalence 1530 12 0.0159 0.0287
Eisenbergiella_massiliensis diagnosis UC diagnosisUC 0.447 0.445 0.4 0.654 abundance 1530 417 0.016 0.0289
Eisenbergiella_massiliensis diagnosis UC diagnosisUC 0.44 0.166 0.00802 0.0174 prevalence 1530 417 0.016 0.0289
Ruminococcus_sp_BSD2780120874_150323_B10 antibiotics Yes antibioticsYes -2.11 0.876 0.0163 0.0325 prevalence 1530 90 0.0163 0.0293
Bacteroides_eggerthii age age age 0.579 0.222 0.0082 0.0329 abundance 1530 409 0.0163 0.0294
Bacteroides_eggerthii age age age 0.00796 0.0612 0.896 0.927 prevalence 1530 409 0.0163 0.0294
Coprococcus_eutactus reads reads reads 0.246 0.22 0.00822 0.0329 abundance 1530 177 0.0164 0.0294
Coprococcus_eutactus reads reads reads 0.0223 0.0883 0.801 0.846 prevalence 1530 177 0.0164 0.0294
Clostridium_leptum diagnosis UC diagnosisUC -0.118 0.257 1 1 abundance 1530 652 0.0168 0.0301
GGB51647_SGB4348 age age age -0.914 0.337 0.00843 0.0334 abundance 1530 123 0.0168 0.0301
Clostridium_leptum diagnosis UC diagnosisUC -0.383 0.146 0.00844 0.0182 prevalence 1530 652 0.0168 0.0301
GGB51647_SGB4348 age age age -0.174 0.1 0.0832 0.133 prevalence 1530 123 0.0168 0.0301
GGB1543_SGB2126 diagnosis CD diagnosisCD -5.68 2.03 0.00887 0.0347 abundance 1530 42 0.0177 0.0316
GGB1543_SGB2126 diagnosis CD diagnosisCD -0.898 0.417 0.0313 0.0583 prevalence 1530 42 0.0177 0.0316
GGB1549_SGB2133 diagnosis UC diagnosisUC -1.23 1.13 0.256 0.466 abundance 1530 46 0.0178 0.0317
GGB1549_SGB2133 diagnosis UC diagnosisUC -1.15 0.439 0.00892 0.0192 prevalence 1530 46 0.0178 0.0317
Coprococcus_comes age age age -0.213 0.0816 1 1 abundance 1530 759 0.0179 0.0319
Coprococcus_comes age age age -0.142 0.0545 0.00897 0.0193 prevalence 1530 759 0.0179 0.0319
Hungatella_hathewayi reads reads reads -0.751 0.156 0.00901 0.0351 abundance 1530 451 0.0179 0.0319
Hungatella_hathewayi reads reads reads 0.117 0.057 0.0406 0.0724 prevalence 1530 451 0.0179 0.0319
Klebsiella_pneumoniae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 4.27 1.46 0.00915 0.0355 abundance 1530 119 0.0182 0.0324
Klebsiella_pneumoniae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1 0.531 0.0597 0.101 prevalence 1530 119 0.0182 0.0324
GGB9480_SGB14874 reads reads reads -0.331 0.125 1 1 abundance 1530 332 0.0188 0.0334
GGB9480_SGB14874 reads reads reads 0.17 0.0654 0.00945 0.0203 prevalence 1530 332 0.0188 0.0334
Alistipes_dispar dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.47 1.01 0.0095 0.0366 abundance 1530 83 0.0189 0.0335
Alistipes_dispar dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.745 0.361 0.039 0.07 prevalence 1530 83 0.0189 0.0335
Lachnospira_eligens diagnosis UC diagnosisUC 0.644 0.22 0.00968 0.037 abundance 1530 929 0.0193 0.0341
Lachnospira_eligens diagnosis UC diagnosisUC 0.114 0.159 0.474 0.574 prevalence 1530 929 0.0193 0.0341
Eisenbergiella_massiliensis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 2.65 0.863 0.0097 0.037 abundance 1530 417 0.0193 0.0341
Eisenbergiella_massiliensis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.261 0.347 0.453 0.556 prevalence 1530 417 0.0193 0.0341
Rikenellaceae_bacterium age age age 0.26 0.111 0.0193 0.0379 prevalence 1530 67 0.0193 0.0341
Bacteroides_intestinalis diagnosis CD diagnosisCD -1.61 0.642 0.0179 0.0598 abundance 1530 158 0.0194 0.0341
Bacteroides_intestinalis diagnosis CD diagnosisCD 0.575 0.223 0.00975 0.0209 prevalence 1530 158 0.0194 0.0341
GGB16040_SGB9347 diagnosis CD diagnosisCD 0.421 0.795 0.539 0.832 abundance 1530 114 0.0195 0.0342
GGB16040_SGB9347 diagnosis CD diagnosisCD 0.754 0.292 0.00978 0.0209 prevalence 1530 114 0.0195 0.0342
Bacteroides_uniformis diagnosis UC diagnosisUC 0.286 0.186 1 1 abundance 1530 1240 0.0195 0.0342
Bacteroides_uniformis diagnosis UC diagnosisUC 0.515 0.199 0.0098 0.0209 prevalence 1530 1240 0.0195 0.0342
Faecalibacterium_SGB15315 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.835 1.17 0.291 0.514 abundance 1530 619 0.0197 0.0344
Faecalibacterium_SGB15315 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.12 0.432 0.00988 0.021 prevalence 1530 619 0.0197 0.0344
Bifidobacterium_longum antibiotics Yes antibioticsYes 0.773 0.361 0.0196 0.0641 abundance 1530 843 0.0198 0.0346
Bifidobacterium_longum antibiotics Yes antibioticsYes -0.481 0.187 0.00996 0.021 prevalence 1530 843 0.0198 0.0346
Blautia_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.871 0.483 0.334 0.577 abundance 1530 1120 0.0199 0.0347
Blautia_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.908 0.353 0.01 0.0211 prevalence 1530 1120 0.0199 0.0347
Clostridium_symbiosum antibiotics Yes antibioticsYes 0.892 0.375 0.0103 0.0391 abundance 1530 539 0.0205 0.0357
Clostridium_symbiosum antibiotics Yes antibioticsYes 0.425 0.183 0.02 0.0388 prevalence 1530 539 0.0205 0.0357
Sutterella_wadsworthensis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.14 0.946 0.438 0.702 abundance 1530 536 0.0213 0.0371
Sutterella_wadsworthensis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.36 0.533 0.0107 0.0225 prevalence 1530 536 0.0213 0.0371
Ruminococcus_lactaris age age age -0.376 0.143 0.011 0.0412 abundance 1530 379 0.0219 0.038
Ruminococcus_lactaris age age age 0.109 0.0599 0.0694 0.114 prevalence 1530 379 0.0219 0.038
Roseburia_inulinivorans age age age -0.104 0.0816 1 1 abundance 1530 951 0.0222 0.0384
Roseburia_inulinivorans age age age -0.146 0.0576 0.0111 0.0233 prevalence 1530 951 0.0222 0.0384
GGB3175_SGB4191 reads reads reads 0.403 0.29 0.0114 0.042 abundance 1530 154 0.0227 0.0392
GGB3175_SGB4191 reads reads reads 0.171 0.0893 0.0558 0.0961 prevalence 1530 154 0.0227 0.0392
Roseburia_intestinalis reads reads reads -0.317 0.118 1 1 abundance 1530 842 0.0227 0.0392
Roseburia_intestinalis reads reads reads 0.138 0.0546 0.0114 0.0238 prevalence 1530 842 0.0227 0.0392
GGB4237_SGB5728 reads reads reads 0.576 0.253 0.0228 0.0441 prevalence 1530 6 0.0228 0.0394
Bacteroides_cellulosilyticus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 4.22 1.51 0.0116 0.0426 abundance 1530 433 0.0231 0.0397
Bacteroides_cellulosilyticus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.19 0.536 0.0262 0.0496 prevalence 1530 433 0.0231 0.0397
Phocaeicola_dorei diagnosis UC diagnosisUC -0.192 0.506 0.601 0.91 abundance 1530 769 0.0235 0.0403
Phocaeicola_dorei diagnosis UC diagnosisUC 0.383 0.152 0.0118 0.0246 prevalence 1530 769 0.0235 0.0403
Prevotella_stercorea diagnosis CD diagnosisCD 1.73 0.772 0.025 0.0479 prevalence 1530 40 0.025 0.0429
Blautia_wexlerae antibiotics Yes antibioticsYes 0.53 0.243 0.0132 0.0476 abundance 1530 1300 0.0262 0.0448
GGB3175_SGB4191 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.695 2.15 0.672 1 abundance 1530 154 0.0262 0.0448
Blautia_wexlerae antibiotics Yes antibioticsYes -0.499 0.226 0.0275 0.052 prevalence 1530 1300 0.0262 0.0448
GGB3175_SGB4191 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.71 0.688 0.0132 0.0273 prevalence 1530 154 0.0262 0.0448
Veillonella_dispar antibiotics Yes antibioticsYes 0.351 0.527 0.422 0.685 abundance 1530 526 0.0266 0.0454
Veillonella_dispar antibiotics Yes antibioticsYes -0.519 0.21 0.0134 0.0276 prevalence 1530 526 0.0266 0.0454
GGB16040_SGB9347 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.877 1.99 0.741 1 abundance 1530 114 0.027 0.0459
Hungatella_hathewayi diagnosis UC diagnosisUC -0.954 0.414 0.0136 0.0486 abundance 1530 451 0.0269 0.0459
Phocaeicola_vulgatus diagnosis UC diagnosisUC 0.405 0.261 0.203 0.397 abundance 1530 1290 0.027 0.0459
GGB16040_SGB9347 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.75 0.71 0.0136 0.0279 prevalence 1530 114 0.027 0.0459
Hungatella_hathewayi diagnosis UC diagnosisUC 0.245 0.157 0.12 0.183 prevalence 1530 451 0.0269 0.0459
Phocaeicola_vulgatus diagnosis UC diagnosisUC 0.602 0.244 0.0136 0.0279 prevalence 1530 1290 0.027 0.0459
Oscillibacter_sp_ER4 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.73 1.5 0.0376 0.107 abundance 1530 458 0.0272 0.0462
Oscillibacter_sp_ER4 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.77 0.72 0.0137 0.0281 prevalence 1530 458 0.0272 0.0462
Eubacterium_ventriosum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.674 0.962 0.263 0.474 abundance 1530 520 0.0275 0.0466
Eubacterium_ventriosum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.05 0.426 0.0138 0.0284 prevalence 1530 520 0.0275 0.0466
Ruthenibacterium_lactatiformans antibiotics Yes antibioticsYes -0.178 0.323 1 1 abundance 1530 797 0.0276 0.0466
Ruthenibacterium_lactatiformans antibiotics Yes antibioticsYes 0.465 0.189 0.0139 0.0284 prevalence 1530 797 0.0276 0.0466
Coprococcus_comes antibiotics Yes antibioticsYes 0.486 0.266 0.0362 0.104 abundance 1530 759 0.0278 0.047
Coprococcus_comes antibiotics Yes antibioticsYes 0.482 0.196 0.014 0.0286 prevalence 1530 759 0.0278 0.047
Akkermansia_muciniphila diagnosis CD diagnosisCD -0.868 0.364 0.0289 0.0864 abundance 1530 407 0.0279 0.047
Akkermansia_muciniphila diagnosis CD diagnosisCD -0.357 0.145 0.014 0.0286 prevalence 1530 407 0.0279 0.047
Alistipes_finegoldii diagnosis CD diagnosisCD -0.0369 0.229 1 1 abundance 1530 639 0.0282 0.0473
Barnesiella_intestinihominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.44 1.78 0.112 0.254 abundance 1530 431 0.0282 0.0473
Fusicatenibacter_saccharivorans diagnosis CD diagnosisCD 0.324 0.16 0.0142 0.0503 abundance 1530 1120 0.0282 0.0473
Alistipes_finegoldii diagnosis CD diagnosisCD -0.326 0.133 0.0142 0.0288 prevalence 1530 639 0.0282 0.0473
Barnesiella_intestinihominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.77 0.72 0.0142 0.0288 prevalence 1530 431 0.0282 0.0473
Fusicatenibacter_saccharivorans diagnosis CD diagnosisCD -0.253 0.184 0.169 0.246 prevalence 1530 1120 0.0282 0.0473
Roseburia_sp_AF02_12 antibiotics Yes antibioticsYes -1.5 0.755 0.0597 0.156 abundance 1530 363 0.0291 0.0487
Roseburia_sp_AF02_12 antibiotics Yes antibioticsYes -0.687 0.281 0.0146 0.0297 prevalence 1530 363 0.0291 0.0487
Bacteroides_eggerthii antibiotics Yes antibioticsYes -0.802 0.793 0.358 0.6 abundance 1530 409 0.0293 0.0491
Bacteroides_eggerthii antibiotics Yes antibioticsYes 0.534 0.219 0.0148 0.0299 prevalence 1530 409 0.0293 0.0491
Faecalibacterium_SGB15346 antibiotics Yes antibioticsYes -0.0726 0.382 1 1 abundance 1530 743 0.0295 0.0492
Faecalibacterium_SGB15346 antibiotics Yes antibioticsYes -0.471 0.194 0.0149 0.0299 prevalence 1530 743 0.0295 0.0492
Eubacterium_ventriosum age age age -0.274 0.108 0.015 0.0527 abundance 1530 520 0.0298 0.0496
Eubacterium_ventriosum age age age 0.0568 0.056 0.31 0.407 prevalence 1530 520 0.0298 0.0496
Ruminococcus_gnavus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.72 0.538 0.0151 0.0527 abundance 1530 767 0.0299 0.0497
Ruminococcus_gnavus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.721 0.351 0.04 0.0715 prevalence 1530 767 0.0299 0.0497
Phocaeicola_massiliensis age age age -0.244 0.137 0.089 0.212 abundance 1530 396 0.0312 0.0519
Phocaeicola_massiliensis age age age 0.141 0.0582 0.0157 0.0316 prevalence 1530 396 0.0312 0.0519
Roseburia_sp_AF02_12 age age age 0.327 0.139 0.0159 0.0546 abundance 1530 363 0.0316 0.0525
Roseburia_sp_AF02_12 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.83 1.08 0.016 0.0546 abundance 1530 363 0.0317 0.0525
Roseburia_sp_AF02_12 age age age 0.0663 0.0623 0.288 0.384 prevalence 1530 363 0.0316 0.0525
Roseburia_sp_AF02_12 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.82 0.382 0.0319 0.0594 prevalence 1530 363 0.0317 0.0525
Oscillibacter_sp_ER4 diagnosis CD diagnosisCD 0.339 0.24 0.0903 0.214 abundance 1530 458 0.0321 0.0531
Oscillibacter_sp_ER4 diagnosis CD diagnosisCD -0.336 0.14 0.0162 0.0324 prevalence 1530 458 0.0321 0.0531
Ruminococcus_bromii reads reads reads -0.352 0.125 1 1 abundance 1530 429 0.0323 0.0534
Ruminococcus_bromii reads reads reads 0.147 0.0614 0.0163 0.0325 prevalence 1530 429 0.0323 0.0534
Alistipes_dispar diagnosis CD diagnosisCD -1.48 0.576 0.0165 0.0557 abundance 1530 83 0.0327 0.0537
Collinsella_SGB14861 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.571 1.23 0.428 0.691 abundance 1530 593 0.0327 0.0537
Ruthenibacterium_lactatiformans diagnosis UC diagnosisUC -0.544 0.256 0.0164 0.0557 abundance 1530 797 0.0326 0.0537
Alistipes_dispar diagnosis CD diagnosisCD -0.429 0.283 0.13 0.198 prevalence 1530 83 0.0327 0.0537
Collinsella_SGB14861 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.28 0.533 0.0165 0.0328 prevalence 1530 593 0.0327 0.0537
Ruthenibacterium_lactatiformans diagnosis UC diagnosisUC -0.0819 0.147 0.578 0.667 prevalence 1530 797 0.0326 0.0537
Prevotella_copri_clade_E diagnosis CD diagnosisCD 1.65 0.776 0.0329 0.061 prevalence 1530 38 0.0329 0.054
Prevotella_copri_clade_C diagnosis CD diagnosisCD 2.3 1.08 0.033 0.0611 prevalence 1530 16 0.033 0.0541
Bacteroides_ilei antibiotics Yes antibioticsYes 1.13 0.532 0.0331 0.0611 prevalence 1530 17 0.0331 0.0541
Lachnospira_pectinoschiza diagnosis UC diagnosisUC 0.77 0.291 0.0167 0.0563 abundance 1530 500 0.0331 0.0541
Lachnospira_pectinoschiza diagnosis UC diagnosisUC -0.183 0.148 0.217 0.302 prevalence 1530 500 0.0331 0.0541
Faecalibacterium_SGB15346 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.637 0.784 0.185 0.373 abundance 1530 743 0.0333 0.0543
Faecalibacterium_SGB15346 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.866 0.362 0.0168 0.0334 prevalence 1530 743 0.0333 0.0543
Bacteroides_eggerthii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.82 2.36 0.173 0.355 abundance 1530 409 0.0334 0.0544
Bacteroides_eggerthii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.29 0.54 0.0168 0.0334 prevalence 1530 409 0.0334 0.0544
Clostridium_sp_AF36_4 reads reads reads -0.0934 0.103 1 1 abundance 1530 568 0.035 0.057
Clostridium_sp_AF36_4 reads reads reads 0.137 0.0578 0.0177 0.035 prevalence 1530 568 0.035 0.057
Bacteroides_cellulosilyticus reads reads reads -0.281 0.149 1 1 abundance 1530 433 0.0358 0.0581
Eubacterium_rectale diagnosis CD diagnosisCD -0.458 0.165 0.0181 0.0598 abundance 1530 1210 0.0358 0.0581
Bacteroides_cellulosilyticus reads reads reads 0.144 0.0609 0.0181 0.0357 prevalence 1530 433 0.0358 0.0581
Eubacterium_rectale diagnosis CD diagnosisCD -0.0705 0.195 0.718 0.784 prevalence 1530 1210 0.0358 0.0581
Oscillospiraceae_bacterium reads reads reads -0.283 0.287 1 1 abundance 1530 81 0.0364 0.0588
Oscillospiraceae_bacterium reads reads reads 0.274 0.116 0.0183 0.0362 prevalence 1530 81 0.0364 0.0588
Faecalibacterium_SGB15346 age age age -0.0229 0.0994 1 1 abundance 1530 743 0.0365 0.059
Faecalibacterium_SGB15346 age age age 0.129 0.0546 0.0184 0.0363 prevalence 1530 743 0.0365 0.059
Clostridiaceae_bacterium_Marseille_Q4149 reads reads reads -0.376 0.232 1 1 abundance 1530 181 0.0389 0.0627
Clostridium_sp_AF36_4 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.212 0.886 0.487 0.765 abundance 1530 568 0.0389 0.0627
Clostridiaceae_bacterium_Marseille_Q4149 reads reads reads 0.187 0.0802 0.0197 0.0384 prevalence 1530 181 0.0389 0.0627
Clostridium_sp_AF36_4 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.06 0.455 0.0196 0.0384 prevalence 1530 568 0.0389 0.0627
Bacteroides_caccae diagnosis UC diagnosisUC 0.103 0.188 1 1 abundance 1530 958 0.0394 0.0634
Bacteroides_caccae diagnosis UC diagnosisUC -0.358 0.154 0.0199 0.0388 prevalence 1530 958 0.0394 0.0634
Tyzzerella_nexilis reads reads reads -0.785 0.19 0.0205 0.0668 abundance 1530 188 0.0406 0.0651
Tyzzerella_nexilis reads reads reads 0.00685 0.0803 0.932 0.952 prevalence 1530 188 0.0406 0.0651
Phascolarctobacterium_succinatutens age age age -0.328 0.135 0.0207 0.0671 abundance 1530 125 0.0409 0.0656
Phascolarctobacterium_succinatutens age age age 0.036 0.09 0.689 0.761 prevalence 1530 125 0.0409 0.0656
Clostridium_sp_AM22_11AC diagnosis UC diagnosisUC 0.621 0.237 0.0208 0.0675 abundance 1530 730 0.0413 0.0661
Clostridium_sp_AM22_11AC diagnosis UC diagnosisUC -0.102 0.145 0.483 0.582 prevalence 1530 730 0.0413 0.0661
Prevotella_SGB48271 diagnosis UC diagnosisUC 2.27 1.12 0.0422 0.075 prevalence 1530 6 0.0422 0.0675
Dysgonomonas_mossii reads reads reads -0.664 0.667 0.633 0.954 abundance 1530 31 0.0431 0.0688
Dysgonomonas_mossii reads reads reads -0.467 0.203 0.0218 0.0422 prevalence 1530 31 0.0431 0.0688
Phocaeicola_sartorii age age age 0.301 0.135 0.0219 0.0701 abundance 1530 424 0.0433 0.069
Phocaeicola_sartorii age age age 0.0264 0.0637 0.679 0.754 prevalence 1530 424 0.0433 0.069
GGB9480_SGB14874 antibiotics Yes antibioticsYes -0.201 0.502 1 1 abundance 1530 332 0.0454 0.0723
GGB9480_SGB14874 antibiotics Yes antibioticsYes -0.574 0.252 0.023 0.0443 prevalence 1530 332 0.0454 0.0723
Parasutterella_SGB9260 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.13 0.998 0.593 0.9 abundance 1530 269 0.0456 0.0724
Parasutterella_SGB9260 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.11 0.487 0.0231 0.0444 prevalence 1530 269 0.0456 0.0724
Ruminococcus_sp_BSD2780120874_150323_B10 reads reads reads 0.22 0.11 0.0459 0.0809 prevalence 1530 90 0.0459 0.0729
Ruminococcus_bicirculans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.48 0.537 0.194 0.384 abundance 1530 678 0.046 0.0729
Ruminococcus_bicirculans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.541 0.238 0.0233 0.0448 prevalence 1530 678 0.046 0.0729
Faecalibacterium_SGB15346 diagnosis CD diagnosisCD -0.63 0.247 0.0237 0.0751 abundance 1530 743 0.0468 0.074
Prevotella_copri_clade_A antibiotics Yes antibioticsYes -2.67 1.14 0.0237 0.0751 abundance 1530 289 0.0468 0.074
Faecalibacterium_SGB15346 diagnosis CD diagnosisCD 0.213 0.134 0.112 0.174 prevalence 1530 743 0.0468 0.074
Prevotella_copri_clade_A antibiotics Yes antibioticsYes -0.243 0.259 0.348 0.448 prevalence 1530 289 0.0468 0.074
Dysgonomonas_mossii age age age 6.57 5.65 0.255 0.464 abundance 1530 31 0.0477 0.0752
Dysgonomonas_mossii age age age -0.5 0.222 0.0241 0.0463 prevalence 1530 31 0.0477 0.0752
Vescimonas_coprocola age age age -0.245 0.0962 1 1 abundance 1530 599 0.0497 0.0784
Vescimonas_coprocola age age age -0.128 0.0571 0.0252 0.0481 prevalence 1530 599 0.0497 0.0784
Tyzzerella_nexilis age age age -0.146 0.197 1 1 abundance 1530 188 0.0505 0.0793
Bacteroides_ilei diagnosis UC diagnosisUC 2.16 1.1 0.0505 0.0881 prevalence 1530 17 0.0505 0.0793
Tyzzerella_nexilis age age age -0.195 0.0874 0.0256 0.0488 prevalence 1530 188 0.0505 0.0793
Lachnospira_sp_NSJ_43 reads reads reads -0.736 0.176 0.0256 0.0798 abundance 1530 296 0.0506 0.0794
Lachnospira_sp_NSJ_43 reads reads reads 0.00084 0.0735 0.991 0.993 prevalence 1530 296 0.0506 0.0794
Enterocloster_bolteae antibiotics Yes antibioticsYes 0.618 0.309 0.0257 0.0798 abundance 1530 866 0.0507 0.0795
Enterocloster_bolteae antibiotics Yes antibioticsYes 0.0381 0.181 0.833 0.872 prevalence 1530 866 0.0507 0.0795
Dysosmobacter_sp_BX15 age age age 0.0536 0.0813 1 1 abundance 1530 621 0.0508 0.0795
Tyzzerella_nexilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.507 0.633 0.253 0.463 abundance 1530 188 0.0509 0.0795
Dysosmobacter_sp_BX15 age age age 0.122 0.0548 0.0257 0.049 prevalence 1530 621 0.0508 0.0795
Tyzzerella_nexilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.612 0.275 0.0258 0.049 prevalence 1530 188 0.0509 0.0795
Dialister_invisus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.271 0.374 1 1 abundance 1530 726 0.0513 0.0798
Dialister_invisus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.49 0.22 0.026 0.0493 prevalence 1530 726 0.0513 0.0798
GGB33512_SGB15201 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.75 1.93 0.0512 0.0892 prevalence 1530 121 0.0512 0.0798
Ruminococcus_gnavus diagnosis CD diagnosisCD 0.0516 0.266 1 1 abundance 1530 767 0.0531 0.0825
Ruminococcus_gnavus diagnosis CD diagnosisCD 0.299 0.135 0.0269 0.0508 prevalence 1530 767 0.0531 0.0825
GGB9342_SGB14306 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.72 1.93 0.054 0.0934 prevalence 1530 92 0.054 0.0838
Hungatella_hathewayi antibiotics Yes antibioticsYes 1.01 0.49 0.0276 0.084 abundance 1530 451 0.0544 0.0843
Hungatella_hathewayi antibiotics Yes antibioticsYes -0.12 0.194 0.536 0.629 prevalence 1530 451 0.0544 0.0843
Clostridium_sp_1001270H_150608_G6 reads reads reads 0.258 0.269 0.0276 0.084 abundance 1530 141 0.0545 0.0843
Clostridium_sp_1001270H_150608_G6 reads reads reads 0.0647 0.097 0.505 0.603 prevalence 1530 141 0.0545 0.0843
GGB9453_SGB14844 antibiotics Yes antibioticsYes -0.698 0.632 0.323 0.561 abundance 1530 222 0.0547 0.0845
Parabacteroides_distasonis antibiotics Yes antibioticsYes 0.38 0.205 0.0278 0.0842 abundance 1530 1140 0.0548 0.0845
GGB9453_SGB14844 antibiotics Yes antibioticsYes 0.509 0.231 0.0277 0.0523 prevalence 1530 222 0.0547 0.0845
Parabacteroides_distasonis antibiotics Yes antibioticsYes 0.155 0.216 0.472 0.573 prevalence 1530 1140 0.0548 0.0845
Bilophila_wadsworthia antibiotics Yes antibioticsYes 0.289 0.315 0.251 0.462 abundance 1530 764 0.056 0.0864
Bilophila_wadsworthia antibiotics Yes antibioticsYes -0.427 0.195 0.0284 0.0535 prevalence 1530 764 0.056 0.0864
Bacteroides_mediterraneensis diagnosis CD diagnosisCD -1.27 0.665 0.0564 0.097 prevalence 1530 13 0.0564 0.0868
Bacteroides_ilei diagnosis CD diagnosisCD 2.07 1.09 0.0579 0.0986 prevalence 1530 17 0.0579 0.089
Ruminococcus_bromii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.99 1.71 0.732 1 abundance 1530 429 0.0581 0.0892
Ruminococcus_bromii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.57 0.721 0.0295 0.0552 prevalence 1530 429 0.0581 0.0892
Butyrivibrio_crossotus antibiotics Yes antibioticsYes 1.04 0.554 0.0598 0.101 prevalence 1530 43 0.0598 0.0916
Parasutterella_SGB9260 age age age 0.256 0.123 0.0305 0.0902 abundance 1530 269 0.06 0.0918
Parasutterella_SGB9260 age age age -0.127 0.0722 0.0777 0.125 prevalence 1530 269 0.06 0.0918
GGB781_SGB1024 reads reads reads 0.368 0.196 0.0602 0.101 prevalence 1530 18 0.0602 0.0919
Ruminococcus_sp_BSD2780120874_150323_B10 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.61 1.92 0.0609 0.102 prevalence 1530 90 0.0609 0.0929
GGB3277_SGB4327 reads reads reads 0.095 0.201 0.0312 0.0918 abundance 1530 152 0.0615 0.0936
GGB3277_SGB4327 reads reads reads 0.127 0.0852 0.137 0.207 prevalence 1530 152 0.0615 0.0936
Bacteroides_caccae reads reads reads -0.243 0.0705 1 1 abundance 1530 958 0.0647 0.0984
Bacteroides_caccae reads reads reads 0.123 0.0578 0.0329 0.061 prevalence 1530 958 0.0647 0.0984
Clostridium_symbiosum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.71 0.609 0.033 0.0957 abundance 1530 539 0.0649 0.0985
Clostridium_symbiosum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.115 0.329 0.728 0.79 prevalence 1530 539 0.0649 0.0985
Phocaeicola_massiliensis reads reads reads -0.213 0.149 1 1 abundance 1530 396 0.0652 0.0989
Phocaeicola_massiliensis reads reads reads 0.13 0.0608 0.0332 0.0612 prevalence 1530 396 0.0652 0.0989
Eubacterium_siraeum antibiotics Yes antibioticsYes 0.473 0.457 0.233 0.438 abundance 1530 565 0.0654 0.0991
Eubacterium_siraeum antibiotics Yes antibioticsYes 0.414 0.194 0.0333 0.0613 prevalence 1530 565 0.0654 0.0991

Full output file structure

MaAsLin 3 generates two types of output files explained below: data and visualization. In addition, the object returned from maaslin3 (fit_out above) contains all the data and results (see ?maaslin_fit).

  1. Data output files
    • significant_results.tsv
      • Described above.
    • all_results.tsv
      • Same format as above but for all associations and with an extra column listing any errors from the model fitting.
    • features
      • This folder includes the filtered, normalized, and transformed versions of the input feature table.
      • These steps are performed sequentially in the above order.
      • If an option is set such that a step does not change the data, the resulting table will still be output.
    • models_LM.rds and models_logistic.rds
      • This file contains a list with every model fit object (LM for linear models, logistic for logistic models).
      • It will only be generated if save_models is set to TRUE.
    • residuals_LM.rds and residuals_logstic.rds
      • This file contains a data frame with residuals for each feature.
    • fitted_LM.rds and fitted_logistic.rds
      • This file contains a data frame with fitted values for each feature.
    • ranef_LM.rds and ranef_logistic.rds
      • This file contains a data frame with extracted random effects for each feature (when random effects are specified).
    • maaslin3.log
      • This file contains all log information for the run.
      • It includes all settings, warnings, errors, and steps run.
  2. Visualization output files
    • summary_plot.pdf
      • This file contains a combined coefficient plot and heatmap of the most significant associations. In the heatmap, one star indicates the individual q-value is below the parameter max_significance, and two stars indicate the individual q-value is below max_significance divided by 10.
    • association_plots/[metadatum]_[feature]_[association].pdf
      • A plot is generated for each significant association up to max_pngs.
      • Scatter plots are used for continuous metadata abundance associations.
      • Box plots are used for categorical data abundance associations.
      • Box plots are used for continuous data prevalence associations.
      • Grids are used for categorical data prevalence associations.
      • Data points plotted are after filtering, normalization, and transformation so that the scale in the plot is the scale that was used in fitting.
        The four types of association plotsThe four types of association plotsThe four types of association plotsThe four types of association plots

        The four types of association plots

At the top right of each association plot is the name of the significant association in the results file, the FDR corrected q-value for the individual association, the number of samples in the dataset, and the number of samples with non-zero abundances for the feature. In the plots with categorical metadata variables, the reference category is on the left, and the significant q-values and coefficients in the top right are in the order of the values specified above. Because the displayed coefficients correspond to the full fit model with (possibly) scaled metadata variables, the marginal association plotted might not match the coefficient displayed. However, the plots are intended to provide an interpretable visual while usually agreeing with the full model.

Diagnostics

There are a few common issues to check for in the results:

  1. When warnings or errors are thrown during the fitting process, they are recorded in the error column of all_results.tsv. Often, these indicate model fitting failures or poor fits that should not be trusted, but sometimes the warnings can be benign, and the model fit might still be reasonable. Users should check associations of interest if they produce errors.
  2. Despite the error checking, significant results could still result from poor model fits. These can usually be diagnosed with the visuals in the association_plots directory.
    • Any significant abundance associations with a categorical variable should usually have at least 10 observations in each category.
    • Significant categorical prevalence associations should also have at least 10 samples in which the feature was present and at least 10 samples in which it was absent for each significant category.
    • Significant abundance associations with continuous metadata should be checked visually for influential outliers.

Replotting

Once maaslin3 has been run once, maaslin_plot_results_from_output can be run with the same param_list as the original maaslin3 run to (re-)create the plots. This allows the user to plot the associations even without having the R object returned by maaslin_fit or maaslin3 (e.g., if fitting models through the command line). It is recommended to fit models with simple variables names that are robust to formula plotting and then convert these into proper names for plotting. Likewise, heatmap_vars and coef_plot_vars can be specified in the param_list at any point, but it is usually easier to see how the names come out at first and then choose which metadata variables will go in the coefficient plot and which will go in the heatmap afterwards with maaslin_plot_results_from_output.

# This section is necessary for updating the summary plot and the association plots

# Rename results file with clean titles
all_results <- read.csv('hmp2_output/all_results.tsv', sep='\t')
all_results <- all_results %>%
  mutate(metadata = case_when(metadata == 'age' ~ 'Age',
                              metadata == 'antibiotics' ~ 'Abx',
                              metadata == 'diagnosis' ~ 'Diagnosis',
                              metadata == 'dysbiosis_state' ~ 'Dysbiosis',
                              metadata == 'reads' ~ 'Read depth'),
         value = case_when(value == 'dysbiosis_CD' ~ 'CD',
                           value == 'dysbiosis_UC' ~ 'UC',
                           value == 'Yes' ~ 'Used', # Antibiotics
                           value == 'age' ~ 'Age',
                           value == 'reads' ~ 'Read depth',
                           TRUE ~ value),
         feature = gsub('_', ' ', feature) %>% 
           gsub(pattern = 'sp ', replacement = 'sp. '))

# Write results
write.table(all_results, 'hmp2_output/all_results.tsv', sep='\t')

# Set the new heatmap and coefficient plot variables and order them
param_list$heatmap_vars = c('Dysbiosis UC', 'Diagnosis UC', 'Abx Used', 'Age', 'Read depth')
param_list$coef_plot_vars = c('Dysbiosis CD', 'Diagnosis CD')

# This section is necessary for updating the association plots
colnames(param_list$input_data) <- gsub('_', ' ', colnames(param_list$input_data)) %>%
  gsub(pattern = 'sp ', replacement = 'sp. ')

# Rename the features in the norm transformed data file
filtered_data_norm_transformed <- 
  read.csv('hmp2_output/features/filtered_data_norm_transformed.tsv', sep='\t')
colnames(filtered_data_norm_transformed) <- 
  gsub('_', ' ', colnames(filtered_data_norm_transformed)) %>%
  gsub(pattern = 'sp ', replacement = 'sp. ')
write.table(filtered_data_norm_transformed, 
            'hmp2_output/features/filtered_data_norm_transformed.tsv', 
            sep='\t', row.names = F)

# Rename the metadata like in the outputs table
colnames(param_list$input_metadata) <- 
  case_when(colnames(param_list$input_metadata) == 'age' ~ 'Age',
            colnames(param_list$input_metadata) == 'antibiotics' ~ 'Abx',
            colnames(param_list$input_metadata) == 'diagnosis' ~ 'Diagnosis',
            colnames(param_list$input_metadata) == 'dysbiosis_state' ~ 'Dysbiosis',
            colnames(param_list$input_metadata) == 'reads' ~ 'Read depth',
            TRUE ~ colnames(param_list$input_metadata))
param_list$input_metadata <- param_list$input_metadata %>%
  mutate(Dysbiosis = case_when(Dysbiosis == 'dysbiosis_UC' ~ 'UC',
                               Dysbiosis == 'dysbiosis_CD' ~ 'CD',
                               Dysbiosis == 'none' ~ 'None') %>%
           factor(levels = c('None', 'UC', 'CD')),
         Abx = case_when(Abx == 'Yes' ~ 'Used',
                         Abx == 'No' ~ 'Not used') %>%
           factor(levels = c('Not used', 'Used')),
         Diagnosis = case_when(Diagnosis == 'nonIBD' ~ 'non-IBD',
                               TRUE ~ Diagnosis) %>%
           factor(levels = c('non-IBD', 'UC', 'CD')))

# Recreate the plots
scatter_plots <- maaslin_plot_results_from_output(param_list)

In the new summary plot below, we can see that the feature names are cleaned up, the metadata names are cleaned up, the set of metadata variables used in the coefficient plot is different, and the metadata used in the heatmap is reordered.

In the association plots, the taxa and metadata have been renamed to be consistent with the results file from earlier.
The four types of association plotsThe four types of association plotsThe four types of association plotsThe four types of association plots

The four types of association plots

4. Advanced Topics

4.1 Absolute abundance

Most microbiome sequencing has historically focused on relative abundances (proportions out of 1). However, some experimental protocols can allow estimation of absolute abundances (cell count/concentration). MaAsLin 3 allows two types of absolute abundance estimation: spike-ins and total abundance scaling. In a spike-in procedure, a small, known quantity of a microbe that otherwise would not be present in the sample is added, and the sequencing procedure is carried out as usual. Then, the absolute abundance of a microbe already in the community is estimated as: \[\textrm{Absolute abundance other microbe}=\frac{\textrm{Relative abundance other microbe}}{\textrm{Relative abundance spike-in microbe}}\cdot (\textrm{Absolute abundance spike-in microbe})\] Alternatively, the total microbial abundance of a sample can be determined (e.g., with qPCR of a marker gene or by cell counting). Then, the absolute abundance of a microbe in the community is estimated as: \[\textrm{Absolute abundance microbe}=(\textrm{Total absolute abundance})\cdot(\textrm{Relative abundance microbe})\] #### Spike-in

The files are used in running MaAsLin 3 with the spike-in procedure on simulated data from SparseDOSSA2. The abundance table is like any other abundance table input to MaAsLin 3 (read counts or relative abundances formatted as samples by features or features by samples) except that ‘Feature101’ is the spike-in (which must be present in every sample). The scaling factor data frame has ‘Feature101’ as its only column name with the absolute abundance of the spike-in for each sample (rownames). If the same quantity of the spike-in was added to all samples, this column could be entirely 1 (or any other arbitrary value). When using a spike-in procedure, the scaling factor data frame should have a single column named the same as one of the features in the abundance table which will be used as the spike-in.

# Abundance table
taxa_table_name <- system.file("extdata", "abundance_spike_in_ex.tsv", package = "maaslin3")
spike_in_taxa_table <- read.csv(taxa_table_name, sep = '\t')

# Metadata table
metadata_name <- system.file("extdata", "metadata_spike_in_ex.tsv", package = "maaslin3")
spike_in_metadata <- read.csv(metadata_name, sep = '\t')
for (col in c('Metadata_1', 'Metadata_2', 'Metadata_5')) {
  spike_in_metadata[,col] <- factor(spike_in_metadata[,col])
}

# Spike-in table
unscaled_name <- system.file("extdata", "scaling_factors_spike_in_ex.tsv", package = "maaslin3")
spike_in_unscaled <- read.csv(unscaled_name, sep = '\t')

spike_in_taxa_table[c(1:5, 101),1:5]
##            Sample1 Sample2 Sample3 Sample4 Sample5
## Feature1         0       0       0       0       0
## Feature2         0       0       0       0       0
## Feature3       554       0    1737       0       0
## Feature4         0       0       0       0       0
## Feature5         0       0       0       0       0
## Feature101   15464    4788    5155    2052   11540
spike_in_metadata[1:5,]
##         Metadata_1 Metadata_2  Metadata_3 Metadata_4 Metadata_5       ID
## Sample1          1          1 -0.41011453  0.6352468          0 Subject1
## Sample2          0          1 -1.35105918  0.2362369          0 Subject2
## Sample3          1          1 -0.48798215 -0.5458514          0 Subject3
## Sample4          0          0 -0.07268457 -0.9903428          1 Subject4
## Sample5          1          0  0.27201198  1.1333223          1 Subject5
spike_in_unscaled[1:5, , drop=F]
##         Feature101
## Sample1        418
## Sample2        183
## Sample3         38
## Sample4       3230
## Sample5        243

The following code fits the absolute abundance model. Note that the normalization must be set to TSS since the procedure involves scaling the relative abundance ratios. Also, median_comparison_abundance is now set to FALSE since we want to test the absolute coefficients against zero. The data frame of absolute abundances is included as the unscaled_abundance parameter, and the spike-in strategy will automatically be detected based on the column name.

param_list <- list(input_data = spike_in_taxa_table, 
                   input_metadata = spike_in_metadata, 
                   output = 'spike_in_demo', 
                   formula = '~ Metadata_1 + Metadata_2 + Metadata_3 + Metadata_4 + Metadata_5',
                   normalization = 'TSS', 
                   transform = 'LOG', 
                   median_comparison_abundance = FALSE, 
                   unscaled_abundance = spike_in_unscaled)

fit_out <- maaslin3(param_list)

The absolute abundance coefficients can be inspected:

rownames(fit_out$fit_data_abundance$results) <- NULL
fit_out$fit_data_abundance$results %>% 
  dplyr::mutate_if(is.numeric, .funs = function(x){(as.character(signif(x, 3)))}) %>%
  knitr::kable() %>%
  kableExtra::kable_styling("striped", position = 'center') %>% 
  kableExtra::scroll_box(width = "800px", height = "400px")
feature metadata value name coef stderr pval_individual error qval_individual model N N.not.zero pval_joint qval_joint
Feature58 Metadata_2 1 Metadata_21 -4.9 0.519 7.63e-13 NA 2.28e-10 LM 100 58 1.53e-12 6.79e-10
Feature88 Metadata_5 1 Metadata_51 7.86 0.819 2.99e-12 NA 4.48e-10 LM 100 49 5.99e-12 1.33e-09
Feature3 Metadata_1 1 Metadata_11 -1.48 0.917 0.116 NA 0.764 LM 100 40 1.17e-07 1.74e-05
Feature10 Metadata_1 1 Metadata_11 -4.19 0.669 3.96e-07 NA 3.95e-05 LM 100 40 7.92e-07 6.55e-05
Feature39 Metadata_4 Metadata_4 Metadata_4 -3.66 0.943 0.000867 NA 0.0236 LM 100 27 8.83e-07 6.55e-05
Feature82 Metadata_1 1 Metadata_11 3.9 3.25 0.241 NA 0.855 LM 100 33 8.5e-07 6.55e-05
Feature45 Metadata_4 Metadata_4 Metadata_4 -0.267 0.442 0.549 NA 0.944 LM 100 47 1.2e-06 6.69e-05
Feature88 Metadata_4 Metadata_4 Metadata_4 -0.313 0.728 0.669 NA 0.973 LM 100 49 1.07e-06 6.69e-05
Feature80 Metadata_1 1 Metadata_11 -0.489 0.969 0.617 NA 0.971 LM 100 41 2.27e-06 0.000112
Feature97 Metadata_4 Metadata_4 Metadata_4 -2.93 0.475 6.2e-06 NA 0.000463 LM 100 25 1.24e-05 0.000552
Feature26 Metadata_3 Metadata_3 Metadata_3 -0.161 0.404 0.695 NA 0.973 LM 100 22 2.79e-05 0.00113
Feature56 Metadata_4 Metadata_4 Metadata_4 5.93 1 1.74e-05 NA 0.00104 LM 100 23 3.48e-05 0.00129
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Feature69 Metadata_1 1 Metadata_11 -1.02 1.1 0.364 NA 0.902 LM 100 28 0.596 0.997
Feature69 Metadata_2 1 Metadata_21 0.608 0.979 0.541 NA 0.944 LM 100 28 0.353 0.997
Feature69 Metadata_3 Metadata_3 Metadata_3 0.406 0.545 0.464 NA 0.944 LM 100 28 0.71 0.997
Feature69 Metadata_4 Metadata_4 Metadata_4 0.171 0.469 0.719 NA 0.973 LM 100 28 0.921 0.997
Feature71 Metadata_1 1 Metadata_11 0.152 0.437 0.729 NA 0.978 LM 100 75 0.838 0.997
Feature71 Metadata_2 1 Metadata_21 -0.552 0.437 0.212 NA 0.849 LM 100 75 0.378 0.997
Feature71 Metadata_5 1 Metadata_51 0.406 0.438 0.357 NA 0.902 LM 100 75 0.586 0.997
Feature74 Metadata_1 1 Metadata_11 0.6 0.441 0.195 NA 0.849 LM 100 20 0.352 0.997
Feature74 Metadata_2 1 Metadata_21 -0.493 0.433 0.274 NA 0.864 LM 100 20 0.473 0.997
Feature74 Metadata_3 Metadata_3 Metadata_3 0.0332 0.233 0.889 NA 0.99 LM 100 20 0.988 0.997
Feature74 Metadata_4 Metadata_4 Metadata_4 0.156 0.239 0.525 NA 0.944 LM 100 20 0.774 0.997
Feature74 Metadata_5 1 Metadata_51 -0.272 0.451 0.556 NA 0.944 LM 100 20 0.803 0.997
Feature75 Metadata_1 1 Metadata_11 0.157 0.495 0.757 NA 0.99 LM 100 17 0.278 0.997
Feature75 Metadata_3 Metadata_3 Metadata_3 0.327 0.227 0.178 NA 0.849 LM 100 17 0.324 0.997
Feature75 Metadata_5 1 Metadata_51 -0.612 0.468 0.217 NA 0.849 LM 100 17 0.387 0.997
Feature76 Metadata_1 1 Metadata_11 -0.159 0.573 0.782 NA 0.99 LM 100 78 0.266 0.997
Feature76 Metadata_2 1 Metadata_21 -0.666 0.556 0.235 NA 0.849 LM 100 78 0.414 0.997
Feature76 Metadata_5 1 Metadata_51 0.253 0.573 0.66 NA 0.973 LM 100 78 0.884 0.997
Feature79 Metadata_1 1 Metadata_11 -0.204 0.676 0.766 NA 0.99 LM 100 25 0.726 0.997
Feature79 Metadata_2 1 Metadata_21 0.183 0.594 0.762 NA 0.99 LM 100 25 0.802 0.997
Feature8 Metadata_1 1 Metadata_11 -0.426 0.553 0.443 NA 0.944 LM 100 98 0.564 0.997
Feature8 Metadata_2 1 Metadata_21 -0.157 0.539 0.771 NA 0.99 LM 100 98 0.948 0.997
Feature8 Metadata_3 Metadata_3 Metadata_3 0.223 0.282 0.43 NA 0.944 LM 100 98 0.676 0.997
Feature8 Metadata_4 Metadata_4 Metadata_4 0.153 0.287 0.595 NA 0.952 LM 100 98 0.718 0.997
Feature8 Metadata_5 1 Metadata_51 -0.0812 0.547 0.882 NA 0.99 LM 100 98 0.971 0.997
Feature80 Metadata_3 Metadata_3 Metadata_3 0.451 0.374 0.236 NA 0.849 LM 100 41 0.296 0.997
Feature80 Metadata_4 Metadata_4 Metadata_4 0.139 0.344 0.688 NA 0.973 LM 100 41 0.903 0.997
Feature80 Metadata_5 1 Metadata_51 -0.113 0.695 0.872 NA 0.99 LM 100 41 0.365 0.997
Feature81 Metadata_1 1 Metadata_11 0.61 6.6 0.941 NA 0.99 LM 100 6 0.484 0.997
Feature81 Metadata_2 1 Metadata_21 -3.46 12.3 0.826 NA 0.99 LM 100 6 0.801 0.997
Feature81 Metadata_3 Metadata_3 Metadata_3 2.93 5.04 0.665 NA 0.973 LM 100 6 0.887 0.997
Feature82 Metadata_2 1 Metadata_21 1.01 1.11 0.373 NA 0.902 LM 100 33 0.607 0.997
Feature82 Metadata_3 Metadata_3 Metadata_3 -0.353 0.507 0.492 NA 0.944 LM 100 33 0.742 0.997
Feature82 Metadata_4 Metadata_4 Metadata_4 -0.116 0.567 0.839 NA 0.99 LM 100 33 0.579 0.997
Feature83 Metadata_1 1 Metadata_11 -1.51 2.38 0.534 NA 0.944 LM 100 24 0.783 0.997
Feature83 Metadata_2 1 Metadata_21 -1.8 2.64 0.503 NA 0.944 LM 100 24 0.753 0.997
Feature83 Metadata_4 Metadata_4 Metadata_4 -0.244 1.17 0.837 NA 0.99 LM 100 24 0.617 0.997
Feature83 Metadata_5 1 Metadata_51 3.7 2.72 0.19 NA 0.849 LM 100 24 0.341 0.997
Feature84 Metadata_3 Metadata_3 Metadata_3 -0.393 0.521 0.47 NA 0.944 LM 100 15 0.656 0.997
Feature84 Metadata_5 1 Metadata_51 -0.434 0.873 0.631 NA 0.973 LM 100 15 0.864 0.997
Feature85 Metadata_1 1 Metadata_11 -0.484 0.538 0.375 NA 0.902 LM 100 36 0.61 0.997
Feature85 Metadata_3 Metadata_3 Metadata_3 -0.327 0.313 0.304 NA 0.868 LM 100 36 0.503 0.997
Feature85 Metadata_4 Metadata_4 Metadata_4 -0.261 0.279 0.357 NA 0.902 LM 100 36 0.586 0.997
Feature86 Metadata_2 1 Metadata_21 -0.59 0.879 0.509 NA 0.944 LM 100 28 0.759 0.997
Feature86 Metadata_3 Metadata_3 Metadata_3 -0.0989 0.543 0.857 NA 0.99 LM 100 28 0.98 0.997
Feature86 Metadata_4 Metadata_4 Metadata_4 -0.055 0.491 0.912 NA 0.99 LM 100 28 0.826 0.997
Feature86 Metadata_5 1 Metadata_51 -0.637 0.879 0.476 NA 0.944 LM 100 28 0.726 0.997
Feature88 Metadata_1 1 Metadata_11 -0.365 0.784 0.644 NA 0.973 LM 100 49 0.811 0.997
Feature88 Metadata_3 Metadata_3 Metadata_3 -0.55 0.451 0.229 NA 0.849 LM 100 49 0.406 0.997
Feature89 Metadata_1 1 Metadata_11 -1.02 1.65 0.559 NA 0.944 LM 100 12 0.559 0.997
Feature89 Metadata_2 1 Metadata_21 -0.793 1.74 0.664 NA 0.973 LM 100 12 0.864 0.997
Feature89 Metadata_3 Metadata_3 Metadata_3 -1.26 1.16 0.32 NA 0.868 LM 100 12 0.537 0.997
Feature89 Metadata_5 1 Metadata_51 -1.98 1.73 0.295 NA 0.868 LM 100 12 0.503 0.997
Feature91 Metadata_1 1 Metadata_11 -0.319 0.307 0.302 NA 0.868 LM 100 79 0.513 0.997
Feature91 Metadata_2 1 Metadata_21 0.118 0.298 0.693 NA 0.973 LM 100 79 0.742 0.997
Feature91 Metadata_3 Metadata_3 Metadata_3 -0.144 0.156 0.36 NA 0.902 LM 100 79 0.591 0.997
Feature91 Metadata_5 1 Metadata_51 0.152 0.303 0.616 NA 0.971 LM 100 79 0.853 0.997
Feature93 Metadata_1 1 Metadata_11 0.227 0.692 0.744 NA 0.99 LM 100 51 0.674 0.997
Feature93 Metadata_3 Metadata_3 Metadata_3 0.231 0.342 0.502 NA 0.944 LM 100 51 0.344 0.997
Feature93 Metadata_4 Metadata_4 Metadata_4 0.0965 0.342 0.779 NA 0.99 LM 100 51 0.254 0.997
Feature93 Metadata_5 1 Metadata_51 -0.832 0.676 0.225 NA 0.849 LM 100 51 0.399 0.997
Feature95 Metadata_2 1 Metadata_21 -0.356 0.504 0.484 NA 0.944 LM 100 45 0.584 0.997
Feature97 Metadata_1 1 Metadata_11 -1.31 0.866 0.148 NA 0.792 LM 100 25 0.274 0.997
Feature97 Metadata_2 1 Metadata_21 1.02 0.79 0.211 NA 0.849 LM 100 25 0.377 0.997
Feature97 Metadata_3 Metadata_3 Metadata_3 0.0268 0.423 0.95 NA 0.99 LM 100 25 0.799 0.997
Feature97 Metadata_5 1 Metadata_51 -0.957 0.763 0.225 NA 0.849 LM 100 25 0.399 0.997
Feature98 Metadata_1 1 Metadata_11 -1.58 4.16 0.769 NA 0.99 LM 100 7 0.507 0.997
Feature98 Metadata_2 1 Metadata_21 -2.2 2.98 0.595 NA 0.952 LM 100 7 0.836 0.997
Feature98 Metadata_3 Metadata_3 Metadata_3 2.92 1.41 0.287 NA 0.868 LM 100 7 0.492 0.997
Feature98 Metadata_4 Metadata_4 Metadata_4 0.0872 1.47 0.962 NA 0.99 LM 100 7 0.808 0.997
Feature98 Metadata_5 1 Metadata_51 0.818 2.6 0.806 NA 0.99 LM 100 7 0.836 0.997
Feature99 Metadata_1 1 Metadata_11 0.0501 0.234 0.835 NA 0.99 LM 100 15 0.593 0.997
Feature99 Metadata_2 1 Metadata_21 -0.149 0.234 0.54 NA 0.944 LM 100 15 0.788 0.997
Feature99 Metadata_4 Metadata_4 Metadata_4 0.0888 0.125 0.495 NA 0.944 LM 100 15 0.743 0.997
Feature99 Metadata_5 1 Metadata_51 0.301 0.208 0.182 NA 0.849 LM 100 15 0.331 0.997
Feature87 Metadata_5 1 Metadata_51 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 23 0.000168 0.00467
Feature23 Metadata_5 1 Metadata_51 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 20 0.00046 0.00974
Feature22 Metadata_2 1 Metadata_21 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 14 0.00148 0.0237
Feature28 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 16 0.00149 0.0237
Feature22 Metadata_3 Metadata_3 Metadata_3 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 14 0.0141 0.158
Feature96 Metadata_1 1 Metadata_11 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 5 0.0624 0.514
Feature46 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 5 0.0915 0.646
Feature22 Metadata_1 1 Metadata_11 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 14 0.111 0.715
Feature94 Metadata_3 Metadata_3 Metadata_3 -0.967 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.109 0.715
Feature96 Metadata_2 1 Metadata_21 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 5 0.126 0.757
Feature78 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 2 0.137 0.77
Feature22 Metadata_5 1 Metadata_51 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 14 0.147 0.797
Feature38 Metadata_3 Metadata_3 Metadata_3 0.136 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.145 0.797
Feature17 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 4 0.17 0.825
Feature14 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 2 0.182 0.855
Feature55 Metadata_3 Metadata_3 Metadata_3 4.66 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.196 0.897
Feature66 Metadata_1 1 Metadata_11 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 3 0.209 0.919
Feature96 Metadata_5 1 Metadata_51 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 5 0.225 0.948
Feature12 Metadata_1 1 Metadata_11 6.11 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.907 0.997
Feature12 Metadata_2 1 Metadata_21 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.981 0.997
Feature12 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.413 0.997
Feature12 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.947 0.997
Feature12 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.984 0.997
Feature14 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 2 0.328 0.997
Feature14 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 2 0.374 0.997
Feature14 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 2 0.358 0.997
Feature14 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 2 0.676 0.997
Feature17 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 4 0.986 0.997
Feature17 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 4 0.673 0.997
Feature17 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 4 0.611 0.997
Feature17 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 4 0.582 0.997
Feature19 Metadata_1 1 Metadata_11 0.284 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.997 0.997
Feature19 Metadata_2 1 Metadata_21 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.996 0.997
Feature19 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.969 0.997
Feature19 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.874 0.997
Feature19 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.992 0.997
Feature22 Metadata_4 Metadata_4 Metadata_4 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 14 0.928 0.997
Feature23 Metadata_1 1 Metadata_11 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 20 0.869 0.997
Feature23 Metadata_2 1 Metadata_21 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 20 0.791 0.997
Feature23 Metadata_3 Metadata_3 Metadata_3 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 20 0.961 0.997
Feature23 Metadata_4 Metadata_4 Metadata_4 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 20 0.538 0.997
Feature28 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 16 0.92 0.997
Feature28 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 16 0.424 0.997
Feature28 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 16 0.642 0.997
Feature28 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 16 0.573 0.997
Feature29 Metadata_1 1 Metadata_11 3.05 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.691 0.997
Feature29 Metadata_2 1 Metadata_21 2.76 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.731 0.997
Feature29 Metadata_3 Metadata_3 Metadata_3 -0.539 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.892 0.997
Feature29 Metadata_4 Metadata_4 Metadata_4 9.33 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.973 0.997
Feature29 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.668 0.997
Feature31 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 1 0.568 0.997
Feature31 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 1 0.607 0.997
Feature31 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 1 0.386 0.997
Feature31 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 1 0.864 0.997
Feature31 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 1 0.575 0.997
Feature32 Metadata_1 1 Metadata_11 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 1 0.599 0.997
Feature32 Metadata_2 1 Metadata_21 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 1 0.644 0.997
Feature32 Metadata_3 Metadata_3 Metadata_3 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 1 0.718 0.997
Feature32 Metadata_4 Metadata_4 Metadata_4 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 1 0.57 0.997
Feature32 Metadata_5 1 Metadata_51 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 1 0.569 0.997
Feature36 Metadata_1 1 Metadata_11 3.34 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.725 0.997
Feature36 Metadata_2 1 Metadata_21 -2.13 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.698 0.997
Feature36 Metadata_3 Metadata_3 Metadata_3 0.0187 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.89 0.997
Feature36 Metadata_4 Metadata_4 Metadata_4 -0.903 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.705 0.997
Feature36 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.766 0.997
Feature38 Metadata_1 1 Metadata_11 1.42 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.627 0.997
Feature38 Metadata_2 1 Metadata_21 1.47 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.27 0.997
Feature38 Metadata_4 Metadata_4 Metadata_4 1.2 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.735 0.997
Feature38 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.726 0.997
Feature4 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 1 0.578 0.997
Feature4 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 1 0.603 0.997
Feature4 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 1 0.921 0.997
Feature4 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 1 0.745 0.997
Feature4 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 1 0.515 0.997
Feature41 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 1 0.586 0.997
Feature41 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 1 0.591 0.997
Feature41 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 1 0.461 0.997
Feature41 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 1 0.767 0.997
Feature41 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 1 0.586 0.997
Feature46 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 5 0.941 0.997
Feature46 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 5 0.736 0.997
Feature46 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 5 0.891 0.997
Feature46 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 5 0.802 0.997
Feature52 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 2 0.33 0.997
Feature52 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 2 0.342 0.997
Feature52 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 2 0.257 0.997
Feature52 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 2 0.987 0.997
Feature52 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 2 0.408 0.997
Feature53 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 1 0.586 0.997
Feature53 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 1 0.591 0.997
Feature53 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 1 0.461 0.997
Feature53 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 1 0.767 0.997
Feature53 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 1 0.586 0.997
Feature54 Metadata_1 1 Metadata_11 8.9 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.668 0.997
Feature54 Metadata_2 1 Metadata_21 8.27 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.276 0.997
Feature54 Metadata_3 Metadata_3 Metadata_3 -6.2 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.632 0.997
Feature54 Metadata_4 Metadata_4 Metadata_4 1.78 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.45 0.997
Feature54 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.617 0.997
Feature55 Metadata_1 1 Metadata_11 -1.41 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.311 0.997
Feature55 Metadata_2 1 Metadata_21 6.3 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.781 0.997
Feature55 Metadata_4 Metadata_4 Metadata_4 -1.77 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.377 0.997
Feature55 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.639 0.997
Feature60 Metadata_1 1 Metadata_11 -0.234 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.889 0.997
Feature60 Metadata_2 1 Metadata_21 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.973 0.997
Feature60 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.337 0.997
Feature60 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.981 0.997
Feature60 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.977 0.997
Feature63 Metadata_1 1 Metadata_11 -5.14 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.564 0.997
Feature63 Metadata_2 1 Metadata_21 1.83 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.611 0.997
Feature63 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.375 0.997
Feature63 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.726 0.997
Feature63 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.684 0.997
Feature66 Metadata_2 1 Metadata_21 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 3 0.729 0.997
Feature66 Metadata_3 Metadata_3 Metadata_3 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 3 0.829 0.997
Feature66 Metadata_4 Metadata_4 Metadata_4 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 3 0.896 0.997
Feature66 Metadata_5 1 Metadata_51 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 3 0.527 0.997
Feature68 Metadata_1 1 Metadata_11 4.75 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.527 0.997
Feature68 Metadata_2 1 Metadata_21 -2.22 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.955 0.997
Feature68 Metadata_3 Metadata_3 Metadata_3 -2.08 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.599 0.997
Feature68 Metadata_4 Metadata_4 Metadata_4 -1.17 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.518 0.997
Feature68 Metadata_5 1 Metadata_51 -0.332 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.56 0.997
Feature72 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 2 0.373 0.997
Feature72 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 2 0.92 0.997
Feature72 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 2 0.462 0.997
Feature72 Metadata_4 Metadata_4 Metadata_4 NA NA NA No data points have the baseline factor level NA LM 100 2 0.519 0.997
Feature72 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 2 0.434 0.997
Feature78 Metadata_1 1 Metadata_11 NA NA NA No data points have the baseline factor level NA LM 100 2 0.303 0.997
Feature78 Metadata_2 1 Metadata_21 NA NA NA No data points have the baseline factor level NA LM 100 2 0.94 0.997
Feature78 Metadata_3 Metadata_3 Metadata_3 NA NA NA No data points have the baseline factor level NA LM 100 2 0.355 0.997
Feature78 Metadata_5 1 Metadata_51 NA NA NA No data points have the baseline factor level NA LM 100 2 0.799 0.997
Feature81 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.567 0.997
Feature87 Metadata_1 1 Metadata_11 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 23 0.95 0.997
Feature87 Metadata_2 1 Metadata_21 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 23 0.966 0.997
Feature87 Metadata_3 Metadata_3 Metadata_3 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 23 0.453 0.997
Feature87 Metadata_4 Metadata_4 Metadata_4 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 23 0.829 0.997
Feature9 Metadata_1 1 Metadata_11 1.79 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.407 0.997
Feature9 Metadata_2 1 Metadata_21 -0.0561 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.424 0.997
Feature9 Metadata_3 Metadata_3 Metadata_3 0.191 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.661 0.997
Feature9 Metadata_4 Metadata_4 Metadata_4 -0.703 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.815 0.997
Feature9 Metadata_5 1 Metadata_51 -0.27 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.383 0.997
Feature94 Metadata_1 1 Metadata_11 1.11 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.941 0.997
Feature94 Metadata_2 1 Metadata_21 3.19 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.997 0.997
Feature94 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.876 0.997
Feature94 Metadata_5 1 Metadata_51 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.4 0.997
Feature96 Metadata_3 Metadata_3 Metadata_3 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 5 0.402 0.997
Feature96 Metadata_4 Metadata_4 Metadata_4 NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 100 5 0.848 0.997

Total abundance scaling

The files are used in running MaAsLin 3 with the total abundance scaling procedure on simulated data from SparseDOSSA2. The abundance table is like any other abundance table input to MaAsLin 3 without any extra features. The scaling factor data frame has ‘total’ as its only column name with the total absolute abundance for each sample (rownames).

# Abundance table
taxa_table_name <- system.file("extdata", "abundance_total_ex.tsv", package = "maaslin3")
total_scaling_taxa_table <- read.csv(taxa_table_name, sep = '\t')

# Metadata table
metadata_name <- system.file("extdata", "metadata_total_ex.tsv", package = "maaslin3")
total_scaling_metadata <- read.csv(metadata_name, sep = '\t')
for (col in c('Metadata_1', 'Metadata_3', 'Metadata_5')) {
  spike_in_metadata[,col] <- factor(spike_in_metadata[,col])
}

# Spike-in table
unscaled_name <- system.file("extdata", "scaling_factors_total_ex.tsv", package = "maaslin3")
total_scaling_unscaled <- read.csv(unscaled_name, sep = '\t')

total_scaling_taxa_table[c(1:5, 101),1:5]
##            Sample1 Sample2 Sample3 Sample4 Sample5
## Feature1     11837       0       0       8      68
## Feature2         0       0       0       0       1
## Feature3         0       0       0       0       0
## Feature4         0       0       1       0       0
## Feature5         0       0       0       0       0
## Feature101    4420   14610    2624    5419    1658
total_scaling_metadata[1:5,]
##         Metadata_1 Metadata_2 Metadata_3 Metadata_4 Metadata_5       ID
## Sample1          0  1.2410844          0  0.4341439          1 Subject1
## Sample2          1  0.0176896          1  1.4894610          1 Subject2
## Sample3          1 -1.7370341          1 -0.7973592          1 Subject3
## Sample4          1  0.1500793          0  3.2816068          0 Subject4
## Sample5          0 -0.2819085          0 -0.6731906          0 Subject5
total_scaling_unscaled[1:5, , drop=F]
##             total
## Sample1  1352.276
## Sample2  1720.637
## Sample3 64194.918
## Sample4 50256.129
## Sample5  1132.367

The following code fits the absolute abundance model. As before, TSS must be set to TRUE, median_comparison_abundance is set to FALSE, and the data frame of absolute abundances is included as the unscaled_abundance parameter. The total abundance scaling procedure will be detected based on the column name.

param_list <- list(input_data = total_scaling_taxa_table, 
                   input_metadata = total_scaling_metadata, 
                   output = 'total_scaling_demo', 
                   formula = '~ Metadata_1 + Metadata_2 + Metadata_3 + Metadata_4 + Metadata_5',
                   normalization = 'TSS', 
                   transform = 'LOG', 
                   median_comparison_abundance = FALSE, 
                   unscaled_abundance = total_scaling_unscaled)

fit_out <- maaslin3(param_list)

The absolute abundance coefficients can be inspected:

rownames(fit_out$fit_data_abundance$results) <- NULL
fit_out$fit_data_abundance$results %>% 
  dplyr::mutate_if(is.numeric, .funs = function(x){(as.character(signif(x, 3)))}) %>%
  knitr::kable() %>%
  kableExtra::kable_styling("striped", position = 'center') %>% 
  kableExtra::scroll_box(width = "800px", height = "400px")
feature metadata value name coef stderr pval_individual error qval_individual model N N.not.zero pval_joint qval_joint
Feature94 Metadata_1 Metadata_1 Metadata_1 2.83 0.374 3.32e-11 NA 9.57e-09 LM 100 94 6.64e-11 3.06e-08
Feature80 Metadata_3 Metadata_3 Metadata_3 2.86 0.316 3.32e-10 NA 4.78e-08 LM 100 37 6.64e-10 1.53e-07
Feature80 Metadata_5 Metadata_5 Metadata_5 2.22 0.296 1.92e-08 NA 1.85e-06 LM 100 37 3.85e-08 5.9e-06
Feature59 Metadata_1 Metadata_1 Metadata_1 1.46 1.02 0.163 NA 0.921 LM 100 37 1.12e-07 1.29e-05
Feature33 Metadata_3 Metadata_3 Metadata_3 -0.207 0.488 0.674 NA 0.981 LM 100 53 1.85e-07 1.7e-05
Feature66 Metadata_2 Metadata_2 Metadata_2 3.83 0.56 1.92e-07 NA 1.11e-05 LM 100 34 3.84e-07 2.53e-05
Feature80 Metadata_1 Metadata_1 Metadata_1 -2.09 0.311 1.69e-07 NA 1.11e-05 LM 100 37 3.39e-07 2.53e-05
Feature79 Metadata_4 Metadata_4 Metadata_4 -0.667 0.982 0.502 NA 0.981 LM 100 40 2.43e-06 0.000139
Feature93 Metadata_1 Metadata_1 Metadata_1 -0.0388 0.317 0.903 NA 0.981 LM 100 68 2.71e-06 0.000139
Feature4 Metadata_1 Metadata_1 Metadata_1 2.87 0.434 1.53e-06 NA 7.35e-05 LM 100 27 3.06e-06 0.000141
Feature8 Metadata_4 Metadata_4 Metadata_4 -0.452 0.557 0.431 NA 0.981 LM 100 20 0.000103 0.00409
Feature86 Metadata_4 Metadata_4 Metadata_4 -0.903 0.392 0.0277 NA 0.38 LM 100 39 0.000107 0.00409
Feature101 Metadata_1 Metadata_1 Metadata_1 1.12 0.287 0.000178 NA 0.00569 LM 100 100 0.000178 0.00629
Feature62 Metadata_4 Metadata_4 Metadata_4 -0.69 0.718 0.359 NA 0.981 LM 100 16 0.000226 0.00743
Feature45 Metadata_3 Metadata_3 Metadata_3 -1.82 0.408 0.000144 NA 0.00569 LM 100 32 0.000288 0.00882
Feature8 Metadata_2 Metadata_2 Metadata_2 3.33 0.656 0.000168 NA 0.00569 LM 100 20 0.000337 0.00969
Feature32 Metadata_5 Metadata_5 Metadata_5 -0.0613 1.19 0.96 NA 0.987 LM 100 20 0.000707 0.0191
Feature45 Metadata_2 Metadata_2 Metadata_2 -2.08 0.645 0.00341 NA 0.0893 LM 100 32 0.00109 0.0277
Feature83 Metadata_4 Metadata_4 Metadata_4 -0.996 1.1 0.432 NA 0.981 LM 100 9 0.00123 0.0298
Feature90 Metadata_4 Metadata_4 Metadata_4 -0.104 1.98 0.963 NA 0.987 LM 100 8 0.0019 0.0437
Feature5 Metadata_4 Metadata_4 Metadata_4 4.92 1.23 0.00205 NA 0.0592 LM 100 17 0.0041 0.0858
Feature75 Metadata_3 Metadata_3 Metadata_3 2.71 1.09 0.0215 NA 0.343 LM 100 26 0.00702 0.14
Feature13 Metadata_3 Metadata_3 Metadata_3 -0.528 0.302 0.0847 NA 0.755 LM 100 74 0.00964 0.177
Feature44 Metadata_4 Metadata_4 Metadata_4 -0.565 0.218 0.011 NA 0.21 LM 100 100 0.011 0.186
Feature68 Metadata_3 Metadata_3 Metadata_3 -2.27 0.717 0.00569 NA 0.137 LM 100 23 0.0113 0.186
Feature75 Metadata_5 Metadata_5 Metadata_5 -3.29 1.08 0.00645 NA 0.138 LM 100 26 0.0128 0.204
Feature86 Metadata_1 Metadata_1 Metadata_1 0.974 0.337 0.00671 NA 0.138 LM 100 39 0.0134 0.205
Feature60 Metadata_4 Metadata_4 Metadata_4 -0.154 0.274 0.575 NA 0.981 LM 100 83 0.0227 0.337
Feature79 Metadata_2 Metadata_2 Metadata_2 1.9 0.724 0.013 NA 0.234 LM 100 40 0.0258 0.371
Feature33 Metadata_4 Metadata_4 Metadata_4 -0.986 0.391 0.0152 NA 0.258 LM 100 53 0.0302 0.421
Feature45 Metadata_1 Metadata_1 Metadata_1 -0.663 0.39 0.101 NA 0.755 LM 100 32 0.0362 0.489
Feature7 Metadata_3 Metadata_3 Metadata_3 -0.316 0.528 0.564 NA 0.981 LM 100 15 0.0468 0.615
Feature91 Metadata_2 Metadata_2 Metadata_2 -1.21 0.511 0.0263 NA 0.38 LM 100 29 0.0518 0.662
Feature20 Metadata_2 Metadata_2 Metadata_2 -5.14 1.67 0.0272 NA 0.38 LM 100 11 0.0537 0.667
Feature25 Metadata_5 Metadata_5 Metadata_5 3.6 0.94 0.0314 NA 0.411 LM 100 9 0.0618 0.732
Feature65 Metadata_1 Metadata_1 Metadata_1 -2.64 3.61 0.518 NA 0.981 LM 100 9 0.0621 0.732
Feature24 Metadata_5 Metadata_5 Metadata_5 0.147 0.452 0.751 NA 0.981 LM 100 17 0.065 0.746
Feature77 Metadata_3 Metadata_3 Metadata_3 0.634 0.411 0.221 NA 0.921 LM 100 9 0.072 0.774
Feature96 Metadata_4 Metadata_4 Metadata_4 -0.83 0.339 0.0368 NA 0.461 LM 100 15 0.0723 0.774
Feature30 Metadata_1 Metadata_1 Metadata_1 -1.69 5.5 0.788 NA 0.981 LM 100 8 0.0828 0.793
Feature6 Metadata_1 Metadata_1 Metadata_1 1.53 1.22 0.266 NA 0.981 LM 100 11 0.0803 0.793
Feature95 Metadata_2 Metadata_2 Metadata_2 -0.785 0.289 0.0418 NA 0.482 LM 100 10 0.0819 0.793
Feature95 Metadata_4 Metadata_4 Metadata_4 1.43 0.527 0.0418 NA 0.482 LM 100 10 0.0819 0.793
Feature87 Metadata_2 Metadata_2 Metadata_2 -0.173 0.497 0.73 NA 0.981 LM 100 50 0.0871 0.817
Feature7 Metadata_1 Metadata_1 Metadata_1 0.976 0.434 0.0511 NA 0.566 LM 100 15 0.0996 0.917
Feature87 Metadata_4 Metadata_4 Metadata_4 -0.256 0.544 0.641 NA 0.981 LM 100 50 0.106 0.954
Feature1 Metadata_1 Metadata_1 Metadata_1 -0.15 0.452 0.741 NA 0.981 LM 100 63 0.179 0.984
Feature1 Metadata_2 Metadata_2 Metadata_2 -0.53 0.409 0.201 NA 0.921 LM 100 63 0.361 0.984
Feature1 Metadata_3 Metadata_3 Metadata_3 0.219 0.443 0.624 NA 0.981 LM 100 63 0.343 0.984
Feature1 Metadata_4 Metadata_4 Metadata_4 -0.289 0.5 0.566 NA 0.981 LM 100 63 0.373 0.984
Feature1 Metadata_5 Metadata_5 Metadata_5 0.327 0.44 0.46 NA 0.981 LM 100 63 0.312 0.984
Feature101 Metadata_5 Metadata_5 Metadata_5 0.271 0.284 0.343 NA 0.981 LM 100 100 0.343 0.984
Feature13 Metadata_1 Metadata_1 Metadata_1 0.363 0.302 0.233 NA 0.921 LM 100 74 0.169 0.984
Feature16 Metadata_1 Metadata_1 Metadata_1 1.6 0.799 0.0923 NA 0.755 LM 100 12 0.176 0.984
Feature16 Metadata_2 Metadata_2 Metadata_2 -0.643 1.34 0.649 NA 0.981 LM 100 12 0.375 0.984
Feature16 Metadata_3 Metadata_3 Metadata_3 0.917 0.988 0.389 NA 0.981 LM 100 12 0.168 0.984
Feature16 Metadata_4 Metadata_4 Metadata_4 -0.287 0.895 0.759 NA 0.981 LM 100 12 0.356 0.984
Feature20 Metadata_1 Metadata_1 Metadata_1 -0.489 2.73 0.865 NA 0.981 LM 100 11 0.128 0.984
Feature20 Metadata_4 Metadata_4 Metadata_4 0.709 1.8 0.71 NA 0.981 LM 100 11 0.308 0.984
Feature20 Metadata_5 Metadata_5 Metadata_5 -2.35 1.87 0.265 NA 0.981 LM 100 11 0.333 0.984
Feature21 Metadata_2 Metadata_2 Metadata_2 0.169 0.467 0.721 NA 0.981 LM 100 29 0.166 0.984
Feature21 Metadata_3 Metadata_3 Metadata_3 0.853 0.502 0.103 NA 0.755 LM 100 29 0.196 0.984
Feature21 Metadata_4 Metadata_4 Metadata_4 0.116 0.496 0.817 NA 0.981 LM 100 29 0.209 0.984
Feature22 Metadata_3 Metadata_3 Metadata_3 0.282 3.41 0.942 NA 0.981 LM 100 8 0.342 0.984
Feature23 Metadata_1 Metadata_1 Metadata_1 0.435 0.309 0.168 NA 0.921 LM 100 42 0.182 0.984
Feature23 Metadata_2 Metadata_2 Metadata_2 0.184 0.378 0.628 NA 0.981 LM 100 42 0.338 0.984
Feature25 Metadata_2 Metadata_2 Metadata_2 0.917 0.612 0.231 NA 0.921 LM 100 9 0.408 0.984
Feature25 Metadata_4 Metadata_4 Metadata_4 -3.02 1.3 0.102 NA 0.755 LM 100 9 0.194 0.984
Feature28 Metadata_1 Metadata_1 Metadata_1 -0.382 0.433 0.411 NA 0.981 LM 100 12 0.396 0.984
Feature28 Metadata_2 Metadata_2 Metadata_2 -0.581 0.383 0.18 NA 0.921 LM 100 12 0.327 0.984
Feature28 Metadata_5 Metadata_5 Metadata_5 0.275 0.528 0.621 NA 0.981 LM 100 12 0.4 0.984
Feature30 Metadata_3 Metadata_3 Metadata_3 0.279 2.07 0.905 NA 0.981 LM 100 8 0.277 0.984
Feature30 Metadata_5 Metadata_5 Metadata_5 2.9 3.88 0.532 NA 0.981 LM 100 8 0.368 0.984
Feature32 Metadata_1 Metadata_1 Metadata_1 -0.822 0.514 0.132 NA 0.826 LM 100 20 0.246 0.984
Feature32 Metadata_2 Metadata_2 Metadata_2 0.936 0.532 0.101 NA 0.755 LM 100 20 0.191 0.984
Feature32 Metadata_3 Metadata_3 Metadata_3 0.724 0.506 0.174 NA 0.921 LM 100 20 0.318 0.984
Feature33 Metadata_1 Metadata_1 Metadata_1 0.0339 0.41 0.935 NA 0.981 LM 100 53 0.189 0.984
Feature35 Metadata_1 Metadata_1 Metadata_1 0.443 0.788 0.59 NA 0.981 LM 100 14 0.248 0.984
Feature35 Metadata_3 Metadata_3 Metadata_3 0.876 0.888 0.353 NA 0.981 LM 100 14 0.285 0.984
Feature4 Metadata_3 Metadata_3 Metadata_3 -0.489 0.396 0.23 NA 0.921 LM 100 27 0.408 0.984
Feature42 Metadata_1 Metadata_1 Metadata_1 -0.115 0.189 0.546 NA 0.981 LM 100 97 0.38 0.984
Feature42 Metadata_3 Metadata_3 Metadata_3 -0.31 0.188 0.101 NA 0.755 LM 100 97 0.192 0.984
Feature42 Metadata_4 Metadata_4 Metadata_4 -0.155 0.192 0.423 NA 0.981 LM 100 97 0.171 0.984
Feature42 Metadata_5 Metadata_5 Metadata_5 0.322 0.187 0.0888 NA 0.755 LM 100 97 0.17 0.984
Feature44 Metadata_2 Metadata_2 Metadata_2 -0.277 0.217 0.204 NA 0.921 LM 100 100 0.204 0.984
Feature44 Metadata_3 Metadata_3 Metadata_3 0.212 0.218 0.333 NA 0.981 LM 100 100 0.333 0.984
Feature44 Metadata_5 Metadata_5 Metadata_5 -0.181 0.216 0.404 NA 0.981 LM 100 100 0.404 0.984
Feature45 Metadata_5 Metadata_5 Metadata_5 0.484 0.385 0.221 NA 0.921 LM 100 32 0.393 0.984
Feature49 Metadata_1 Metadata_1 Metadata_1 0.645 0.52 0.432 NA 0.981 LM 100 7 0.172 0.984
Feature49 Metadata_3 Metadata_3 Metadata_3 -0.893 0.492 0.321 NA 0.981 LM 100 7 0.414 0.984
Feature5 Metadata_2 Metadata_2 Metadata_2 0.125 0.706 0.863 NA 0.981 LM 100 17 0.31 0.984
Feature55 Metadata_3 Metadata_3 Metadata_3 0.501 0.392 0.205 NA 0.921 LM 100 68 0.368 0.984
Feature55 Metadata_4 Metadata_4 Metadata_4 -0.013 0.414 0.975 NA 0.987 LM 100 68 0.206 0.984
Feature58 Metadata_1 Metadata_1 Metadata_1 -0.685 0.481 0.198 NA 0.921 LM 100 13 0.357 0.984
Feature58 Metadata_3 Metadata_3 Metadata_3 0.575 0.521 0.306 NA 0.981 LM 100 13 0.362 0.984
Feature58 Metadata_5 Metadata_5 Metadata_5 0.845 0.478 0.12 NA 0.788 LM 100 13 0.226 0.984
Feature59 Metadata_2 Metadata_2 Metadata_2 -0.119 0.426 0.782 NA 0.981 LM 100 37 0.296 0.984
Feature59 Metadata_3 Metadata_3 Metadata_3 -0.132 0.472 0.781 NA 0.981 LM 100 37 0.371 0.984
Feature59 Metadata_5 Metadata_5 Metadata_5 -0.597 0.45 0.194 NA 0.921 LM 100 37 0.35 0.984
Feature6 Metadata_3 Metadata_3 Metadata_3 -3.37 2.08 0.166 NA 0.921 LM 100 11 0.304 0.984
Feature6 Metadata_4 Metadata_4 Metadata_4 2.57 1.55 0.159 NA 0.921 LM 100 11 0.292 0.984
Feature6 Metadata_5 Metadata_5 Metadata_5 3.19 2.14 0.196 NA 0.921 LM 100 11 0.353 0.984
Feature60 Metadata_1 Metadata_1 Metadata_1 0.315 0.254 0.219 NA 0.921 LM 100 83 0.39 0.984
Feature60 Metadata_3 Metadata_3 Metadata_3 0.0431 0.251 0.864 NA 0.981 LM 100 83 0.235 0.984
Feature60 Metadata_5 Metadata_5 Metadata_5 0.308 0.251 0.224 NA 0.921 LM 100 83 0.398 0.984
Feature62 Metadata_3 Metadata_3 Metadata_3 -0.442 0.65 0.512 NA 0.981 LM 100 16 0.355 0.984
Feature63 Metadata_3 Metadata_3 Metadata_3 3.33 3.94 0.486 NA 0.981 LM 100 8 0.353 0.984
Feature63 Metadata_5 Metadata_5 Metadata_5 -1.36 4.19 0.776 NA 0.981 LM 100 8 0.384 0.984
Feature65 Metadata_3 Metadata_3 Metadata_3 0.175 1.5 0.914 NA 0.981 LM 100 9 0.374 0.984
Feature66 Metadata_1 Metadata_1 Metadata_1 0.416 0.508 0.42 NA 0.981 LM 100 34 0.405 0.984
Feature68 Metadata_1 Metadata_1 Metadata_1 1.36 0.704 0.0699 NA 0.745 LM 100 23 0.135 0.984
Feature68 Metadata_4 Metadata_4 Metadata_4 -1.29 0.791 0.122 NA 0.788 LM 100 23 0.229 0.984
Feature7 Metadata_2 Metadata_2 Metadata_2 0.727 0.423 0.119 NA 0.788 LM 100 15 0.225 0.984
Feature7 Metadata_4 Metadata_4 Metadata_4 -1.32 0.776 0.123 NA 0.788 LM 100 15 0.231 0.984
Feature72 Metadata_2 Metadata_2 Metadata_2 -0.69 1.47 0.66 NA 0.981 LM 100 11 0.392 0.984
Feature72 Metadata_4 Metadata_4 Metadata_4 -0.706 1.23 0.592 NA 0.981 LM 100 11 0.262 0.984
Feature74 Metadata_2 Metadata_2 Metadata_2 -6.9 3.14 0.159 NA 0.921 LM 100 8 0.293 0.984
Feature74 Metadata_3 Metadata_3 Metadata_3 2.24 1.17 0.195 NA 0.921 LM 100 8 0.351 0.984
Feature74 Metadata_4 Metadata_4 Metadata_4 0.79 0.532 0.276 NA 0.981 LM 100 8 0.184 0.984
Feature75 Metadata_4 Metadata_4 Metadata_4 2.01 1.13 0.0903 NA 0.755 LM 100 26 0.173 0.984
Feature77 Metadata_1 Metadata_1 Metadata_1 -0.0643 0.297 0.842 NA 0.981 LM 100 9 0.394 0.984
Feature78 Metadata_1 Metadata_1 Metadata_1 0.746 0.552 0.191 NA 0.921 LM 100 27 0.345 0.984
Feature78 Metadata_2 Metadata_2 Metadata_2 -0.2 0.567 0.728 NA 0.981 LM 100 27 0.36 0.984
Feature79 Metadata_3 Metadata_3 Metadata_3 0.08 0.671 0.906 NA 0.981 LM 100 40 0.373 0.984
Feature8 Metadata_5 Metadata_5 Metadata_5 -0.662 0.385 0.107 NA 0.755 LM 100 20 0.203 0.984
Feature80 Metadata_4 Metadata_4 Metadata_4 0.2 0.272 0.468 NA 0.981 LM 100 37 0.175 0.984
Feature83 Metadata_1 Metadata_1 Metadata_1 1.56 0.89 0.177 NA 0.921 LM 100 9 0.322 0.984
Feature83 Metadata_3 Metadata_3 Metadata_3 -2.74 1.04 0.0784 NA 0.755 LM 100 9 0.151 0.984
Feature83 Metadata_5 Metadata_5 Metadata_5 -2.07 0.902 0.105 NA 0.755 LM 100 9 0.2 0.984
Feature85 Metadata_1 Metadata_1 Metadata_1 0.466 0.606 0.456 NA 0.981 LM 100 19 0.148 0.984
Feature85 Metadata_2 Metadata_2 Metadata_2 -1.26 0.694 0.0922 NA 0.755 LM 100 19 0.176 0.984
Feature85 Metadata_4 Metadata_4 Metadata_4 0.623 0.49 0.226 NA 0.921 LM 100 19 0.401 0.984
Feature85 Metadata_5 Metadata_5 Metadata_5 0.648 0.735 0.394 NA 0.981 LM 100 19 0.154 0.984
Feature86 Metadata_2 Metadata_2 Metadata_2 0.108 0.415 0.797 NA 0.981 LM 100 39 0.413 0.984
Feature87 Metadata_1 Metadata_1 Metadata_1 -0.493 0.496 0.326 NA 0.981 LM 100 50 0.24 0.984
Feature89 Metadata_2 Metadata_2 Metadata_2 0.109 0.328 0.742 NA 0.981 LM 100 65 0.161 0.984
Feature89 Metadata_3 Metadata_3 Metadata_3 0.415 0.316 0.194 NA 0.921 LM 100 65 0.35 0.984
Feature89 Metadata_5 Metadata_5 Metadata_5 -0.579 0.319 0.0745 NA 0.755 LM 100 65 0.143 0.984
Feature90 Metadata_1 Metadata_1 Metadata_1 -2.68 1.39 0.193 NA 0.921 LM 100 8 0.349 0.984
Feature93 Metadata_4 Metadata_4 Metadata_4 0.0247 0.277 0.929 NA 0.981 LM 100 68 0.396 0.984
Feature93 Metadata_5 Metadata_5 Metadata_5 -0.0662 0.282 0.815 NA 0.981 LM 100 68 0.211 0.984
Feature97 Metadata_1 Metadata_1 Metadata_1 0.356 0.505 0.495 NA 0.981 LM 100 17 0.293 0.984
Feature97 Metadata_2 Metadata_2 Metadata_2 0.723 0.554 0.219 NA 0.921 LM 100 17 0.306 0.984
Feature97 Metadata_5 Metadata_5 Metadata_5 0.522 0.524 0.341 NA 0.981 LM 100 17 0.336 0.984
Feature4 Metadata_5 Metadata_5 Metadata_5 -0.463 0.383 0.241 NA 0.936 LM 100 27 0.423 0.984
Feature96 Metadata_1 Metadata_1 Metadata_1 0.258 0.455 0.584 NA 0.981 LM 100 15 0.424 0.984
Feature49 Metadata_4 Metadata_4 Metadata_4 2.44 0.99 0.246 NA 0.944 LM 100 7 0.431 0.996
Feature91 Metadata_1 Metadata_1 Metadata_1 0.103 0.455 0.823 NA 0.981 LM 100 29 0.436 0.998
Feature10 Metadata_1 Metadata_1 Metadata_1 -0.572 0.887 0.543 NA 0.981 LM 100 12 0.778 1
Feature10 Metadata_2 Metadata_2 Metadata_2 -0.612 0.91 0.526 NA 0.981 LM 100 12 0.65 1
Feature10 Metadata_3 Metadata_3 Metadata_3 0.211 0.756 0.79 NA 0.981 LM 100 12 0.956 1
Feature10 Metadata_4 Metadata_4 Metadata_4 0.697 0.686 0.348 NA 0.981 LM 100 12 0.575 1
Feature10 Metadata_5 Metadata_5 Metadata_5 -0.219 0.843 0.804 NA 0.981 LM 100 12 0.5 1
Feature101 Metadata_2 Metadata_2 Metadata_2 -0.0846 0.285 0.767 NA 0.981 LM 100 100 0.767 1
Feature101 Metadata_3 Metadata_3 Metadata_3 -0.0243 0.286 0.932 NA 0.981 LM 100 100 0.932 1
Feature101 Metadata_4 Metadata_4 Metadata_4 -0.0179 0.286 0.95 NA 0.981 LM 100 100 0.95 1
Feature13 Metadata_2 Metadata_2 Metadata_2 0.204 0.315 0.52 NA 0.981 LM 100 74 0.77 1
Feature13 Metadata_4 Metadata_4 Metadata_4 -0.106 0.328 0.747 NA 0.981 LM 100 74 0.887 1
Feature13 Metadata_5 Metadata_5 Metadata_5 0.228 0.294 0.442 NA 0.981 LM 100 74 0.527 1
Feature16 Metadata_5 Metadata_5 Metadata_5 0.143 0.849 0.872 NA 0.981 LM 100 12 0.897 1
Feature19 Metadata_1 Metadata_1 Metadata_1 -0.245 0.732 0.769 NA 0.981 LM 100 8 0.774 1
Feature19 Metadata_2 Metadata_2 Metadata_2 1.51 2.15 0.555 NA 0.981 LM 100 8 0.802 1
Feature19 Metadata_3 Metadata_3 Metadata_3 0.101 1.35 0.947 NA 0.981 LM 100 8 0.997 1
Feature19 Metadata_4 Metadata_4 Metadata_4 -2.16 1.85 0.363 NA 0.981 LM 100 8 0.594 1
Feature19 Metadata_5 Metadata_5 Metadata_5 1.53 1.07 0.29 NA 0.981 LM 100 8 0.496 1
Feature20 Metadata_3 Metadata_3 Metadata_3 0.269 1.78 0.886 NA 0.981 LM 100 11 0.931 1
Feature21 Metadata_1 Metadata_1 Metadata_1 -0.499 0.488 0.316 NA 0.981 LM 100 29 0.533 1
Feature21 Metadata_5 Metadata_5 Metadata_5 0.119 0.419 0.779 NA 0.981 LM 100 29 0.854 1
Feature22 Metadata_1 Metadata_1 Metadata_1 -0.414 2.28 0.873 NA 0.981 LM 100 8 0.977 1
Feature22 Metadata_2 Metadata_2 Metadata_2 -0.879 1.66 0.65 NA 0.981 LM 100 8 0.877 1
Feature22 Metadata_4 Metadata_4 Metadata_4 0.217 2.76 0.944 NA 0.981 LM 100 8 0.93 1
Feature22 Metadata_5 Metadata_5 Metadata_5 0.0672 2.04 0.977 NA 0.987 LM 100 8 0.999 1
Feature23 Metadata_3 Metadata_3 Metadata_3 0.311 0.304 0.312 NA 0.981 LM 100 42 0.527 1
Feature23 Metadata_4 Metadata_4 Metadata_4 0.3 0.344 0.389 NA 0.981 LM 100 42 0.51 1
Feature23 Metadata_5 Metadata_5 Metadata_5 -0.117 0.322 0.719 NA 0.981 LM 100 42 0.864 1
Feature24 Metadata_1 Metadata_1 Metadata_1 -0.0727 0.442 0.872 NA 0.981 LM 100 17 0.658 1
Feature24 Metadata_2 Metadata_2 Metadata_2 0.311 0.571 0.597 NA 0.981 LM 100 17 0.723 1
Feature24 Metadata_3 Metadata_3 Metadata_3 0.19 0.417 0.658 NA 0.981 LM 100 17 0.883 1
Feature24 Metadata_4 Metadata_4 Metadata_4 -0.128 0.361 0.73 NA 0.981 LM 100 17 0.805 1
Feature25 Metadata_1 Metadata_1 Metadata_1 -0.583 1.15 0.648 NA 0.981 LM 100 9 0.876 1
Feature25 Metadata_3 Metadata_3 Metadata_3 0.666 1.21 0.621 NA 0.981 LM 100 9 0.856 1
Feature28 Metadata_3 Metadata_3 Metadata_3 0.527 0.437 0.273 NA 0.981 LM 100 12 0.472 1
Feature28 Metadata_4 Metadata_4 Metadata_4 -0.638 0.638 0.356 NA 0.981 LM 100 12 0.528 1
Feature29 Metadata_2 Metadata_2 Metadata_2 -4.72 3.75 0.428 NA 0.981 LM 100 6 0.672 1
Feature29 Metadata_3 Metadata_3 Metadata_3 -4.86 4.47 0.473 NA 0.981 LM 100 6 0.723 1
Feature29 Metadata_4 Metadata_4 Metadata_4 7.62 4.43 0.335 NA 0.981 LM 100 6 0.558 1
Feature29 Metadata_5 Metadata_5 Metadata_5 2.24 1.81 0.433 NA 0.981 LM 100 6 0.679 1
Feature30 Metadata_2 Metadata_2 Metadata_2 2.21 2.75 0.505 NA 0.981 LM 100 8 0.726 1
Feature30 Metadata_4 Metadata_4 Metadata_4 -2.02 1.81 0.382 NA 0.981 LM 100 8 0.618 1
Feature32 Metadata_4 Metadata_4 Metadata_4 -0.0933 0.495 0.853 NA 0.981 LM 100 20 0.758 1
Feature33 Metadata_2 Metadata_2 Metadata_2 0.0556 0.374 0.883 NA 0.981 LM 100 53 0.887 1
Feature33 Metadata_5 Metadata_5 Metadata_5 0.103 0.396 0.795 NA 0.981 LM 100 53 0.945 1
Feature35 Metadata_2 Metadata_2 Metadata_2 0.539 1.27 0.683 NA 0.981 LM 100 14 0.899 1
Feature35 Metadata_4 Metadata_4 Metadata_4 0.185 1.22 0.883 NA 0.981 LM 100 14 0.686 1
Feature35 Metadata_5 Metadata_5 Metadata_5 0.0828 0.96 0.933 NA 0.981 LM 100 14 0.762 1
Feature4 Metadata_2 Metadata_2 Metadata_2 0.24 0.392 0.547 NA 0.981 LM 100 27 0.463 1
Feature4 Metadata_4 Metadata_4 Metadata_4 -0.0531 0.424 0.901 NA 0.981 LM 100 27 0.973 1
Feature40 Metadata_1 Metadata_1 Metadata_1 -0.0427 0.522 0.936 NA 0.981 LM 100 24 0.652 1
Feature40 Metadata_2 Metadata_2 Metadata_2 -0.457 0.632 0.479 NA 0.981 LM 100 24 0.729 1
Feature40 Metadata_3 Metadata_3 Metadata_3 -0.554 0.519 0.3 NA 0.981 LM 100 24 0.51 1
Feature40 Metadata_4 Metadata_4 Metadata_4 0.118 0.594 0.845 NA 0.981 LM 100 24 0.976 1
Feature40 Metadata_5 Metadata_5 Metadata_5 0.165 0.538 0.763 NA 0.981 LM 100 24 0.944 1
Feature42 Metadata_2 Metadata_2 Metadata_2 -0.196 0.184 0.29 NA 0.981 LM 100 97 0.495 1
Feature44 Metadata_1 Metadata_1 Metadata_1 0.0911 0.218 0.677 NA 0.981 LM 100 100 0.677 1
Feature45 Metadata_4 Metadata_4 Metadata_4 -0.254 0.384 0.514 NA 0.981 LM 100 32 0.764 1
Feature49 Metadata_2 Metadata_2 Metadata_2 0.554 0.924 0.656 NA 0.981 LM 100 7 0.882 1
Feature49 Metadata_5 Metadata_5 Metadata_5 -0.414 0.292 0.391 NA 0.981 LM 100 7 0.63 1
Feature5 Metadata_1 Metadata_1 Metadata_1 0.024 0.876 0.979 NA 0.987 LM 100 17 0.938 1
Feature5 Metadata_3 Metadata_3 Metadata_3 0.774 0.703 0.295 NA 0.981 LM 100 17 0.503 1
Feature5 Metadata_5 Metadata_5 Metadata_5 0.0356 0.826 0.966 NA 0.987 LM 100 17 0.998 1
Feature52 Metadata_1 Metadata_1 Metadata_1 0.167 0.315 0.598 NA 0.981 LM 100 65 0.838 1
Feature52 Metadata_2 Metadata_2 Metadata_2 0.0486 0.325 0.882 NA 0.981 LM 100 65 0.688 1
Feature52 Metadata_3 Metadata_3 Metadata_3 -0.11 0.318 0.73 NA 0.981 LM 100 65 0.927 1
Feature52 Metadata_4 Metadata_4 Metadata_4 -0.146 0.315 0.645 NA 0.981 LM 100 65 0.806 1
Feature52 Metadata_5 Metadata_5 Metadata_5 -0.0857 0.314 0.786 NA 0.981 LM 100 65 0.49 1
Feature55 Metadata_1 Metadata_1 Metadata_1 0.288 0.388 0.46 NA 0.981 LM 100 68 0.709 1
Feature55 Metadata_2 Metadata_2 Metadata_2 -0.423 0.405 0.3 NA 0.981 LM 100 68 0.51 1
Feature55 Metadata_5 Metadata_5 Metadata_5 -0.137 0.394 0.73 NA 0.981 LM 100 68 0.927 1
Feature58 Metadata_2 Metadata_2 Metadata_2 -0.477 0.567 0.428 NA 0.981 LM 100 13 0.673 1
Feature58 Metadata_4 Metadata_4 Metadata_4 0.646 0.654 0.357 NA 0.981 LM 100 13 0.586 1
Feature59 Metadata_4 Metadata_4 Metadata_4 0.146 0.456 0.75 NA 0.981 LM 100 37 0.608 1
Feature6 Metadata_2 Metadata_2 Metadata_2 -0.241 0.636 0.721 NA 0.981 LM 100 11 0.652 1
Feature60 Metadata_2 Metadata_2 Metadata_2 -0.164 0.251 0.516 NA 0.981 LM 100 83 0.673 1
Feature62 Metadata_1 Metadata_1 Metadata_1 0.346 0.703 0.633 NA 0.981 LM 100 16 0.733 1
Feature62 Metadata_2 Metadata_2 Metadata_2 0.0831 0.572 0.887 NA 0.981 LM 100 16 0.968 1
Feature62 Metadata_5 Metadata_5 Metadata_5 -0.15 0.687 0.831 NA 0.981 LM 100 16 0.732 1
Feature63 Metadata_1 Metadata_1 Metadata_1 1.39 2.88 0.676 NA 0.981 LM 100 8 0.643 1
Feature63 Metadata_2 Metadata_2 Metadata_2 -1.64 4.59 0.755 NA 0.981 LM 100 8 0.851 1
Feature63 Metadata_4 Metadata_4 Metadata_4 0.407 2.68 0.893 NA 0.981 LM 100 8 0.989 1
Feature65 Metadata_2 Metadata_2 Metadata_2 3.72 4.51 0.47 NA 0.981 LM 100 9 0.719 1
Feature65 Metadata_4 Metadata_4 Metadata_4 3.17 4.71 0.549 NA 0.981 LM 100 9 0.797 1
Feature65 Metadata_5 Metadata_5 Metadata_5 0.331 1.43 0.832 NA 0.981 LM 100 9 0.936 1
Feature66 Metadata_3 Metadata_3 Metadata_3 0.211 0.518 0.687 NA 0.981 LM 100 34 0.902 1
Feature66 Metadata_4 Metadata_4 Metadata_4 0.242 0.517 0.644 NA 0.981 LM 100 34 0.472 1
Feature66 Metadata_5 Metadata_5 Metadata_5 0.181 0.535 0.737 NA 0.981 LM 100 34 0.931 1
Feature68 Metadata_2 Metadata_2 Metadata_2 0.449 0.839 0.599 NA 0.981 LM 100 23 0.788 1
Feature68 Metadata_5 Metadata_5 Metadata_5 -0.137 0.565 0.812 NA 0.981 LM 100 23 0.963 1
Feature7 Metadata_5 Metadata_5 Metadata_5 0.404 0.467 0.409 NA 0.981 LM 100 15 0.651 1
Feature72 Metadata_1 Metadata_1 Metadata_1 1.06 1.57 0.528 NA 0.981 LM 100 11 0.681 1
Feature72 Metadata_3 Metadata_3 Metadata_3 0.298 1.57 0.857 NA 0.981 LM 100 11 0.87 1
Feature72 Metadata_5 Metadata_5 Metadata_5 0.282 1.25 0.83 NA 0.981 LM 100 11 0.886 1
Feature74 Metadata_1 Metadata_1 Metadata_1 -1.56 1.19 0.319 NA 0.981 LM 100 8 0.537 1
Feature74 Metadata_5 Metadata_5 Metadata_5 0.115 0.555 0.855 NA 0.981 LM 100 8 0.808 1
Feature75 Metadata_1 Metadata_1 Metadata_1 0.493 0.941 0.606 NA 0.981 LM 100 26 0.845 1
Feature75 Metadata_2 Metadata_2 Metadata_2 0.414 1 0.683 NA 0.981 LM 100 26 0.9 1
Feature77 Metadata_2 Metadata_2 Metadata_2 -0.156 0.274 0.609 NA 0.981 LM 100 9 0.843 1
Feature77 Metadata_4 Metadata_4 Metadata_4 0.55 0.796 0.539 NA 0.981 LM 100 9 0.788 1
Feature77 Metadata_5 Metadata_5 Metadata_5 0.101 0.284 0.745 NA 0.981 LM 100 9 0.608 1
Feature78 Metadata_3 Metadata_3 Metadata_3 0.207 0.584 0.727 NA 0.981 LM 100 27 0.798 1
Feature78 Metadata_4 Metadata_4 Metadata_4 -0.324 0.487 0.512 NA 0.981 LM 100 27 0.762 1
Feature78 Metadata_5 Metadata_5 Metadata_5 -0.295 0.561 0.605 NA 0.981 LM 100 27 0.844 1
Feature79 Metadata_1 Metadata_1 Metadata_1 0.282 0.661 0.673 NA 0.981 LM 100 40 0.499 1
Feature79 Metadata_5 Metadata_5 Metadata_5 0.0578 0.656 0.93 NA 0.981 LM 100 40 0.66 1
Feature8 Metadata_1 Metadata_1 Metadata_1 -0.167 0.4 0.682 NA 0.981 LM 100 20 0.796 1
Feature8 Metadata_3 Metadata_3 Metadata_3 -0.0861 0.428 0.843 NA 0.981 LM 100 20 0.61 1
Feature80 Metadata_2 Metadata_2 Metadata_2 -0.257 0.338 0.452 NA 0.981 LM 100 37 0.492 1
Feature83 Metadata_2 Metadata_2 Metadata_2 0.583 1.47 0.719 NA 0.981 LM 100 9 0.921 1
Feature85 Metadata_3 Metadata_3 Metadata_3 0.166 0.552 0.768 NA 0.981 LM 100 19 0.946 1
Feature86 Metadata_3 Metadata_3 Metadata_3 0.133 0.35 0.706 NA 0.981 LM 100 39 0.689 1
Feature86 Metadata_5 Metadata_5 Metadata_5 -0.0258 0.344 0.941 NA 0.981 LM 100 39 0.95 1
Feature87 Metadata_3 Metadata_3 Metadata_3 0.072 0.488 0.883 NA 0.981 LM 100 50 0.986 1
Feature87 Metadata_5 Metadata_5 Metadata_5 -0.117 0.504 0.818 NA 0.981 LM 100 50 0.955 1
Feature89 Metadata_1 Metadata_1 Metadata_1 0.324 0.318 0.313 NA 0.981 LM 100 65 0.528 1
Feature89 Metadata_4 Metadata_4 Metadata_4 0.253 0.319 0.431 NA 0.981 LM 100 65 0.676 1
Feature9 Metadata_1 Metadata_1 Metadata_1 0.0118 0.716 0.987 NA 0.987 LM 100 14 1 1
Feature9 Metadata_2 Metadata_2 Metadata_2 -0.931 0.794 0.275 NA 0.981 LM 100 14 0.474 1
Feature9 Metadata_3 Metadata_3 Metadata_3 0.334 0.615 0.602 NA 0.981 LM 100 14 0.842 1
Feature9 Metadata_4 Metadata_4 Metadata_4 -0.362 0.704 0.621 NA 0.981 LM 100 14 0.856 1
Feature9 Metadata_5 Metadata_5 Metadata_5 0.0159 0.611 0.98 NA 0.987 LM 100 14 0.832 1
Feature90 Metadata_2 Metadata_2 Metadata_2 -1.63 2.01 0.503 NA 0.981 LM 100 8 0.615 1
Feature90 Metadata_3 Metadata_3 Metadata_3 -0.583 1.46 0.727 NA 0.981 LM 100 8 0.926 1
Feature90 Metadata_5 Metadata_5 Metadata_5 -1.14 1.72 0.578 NA 0.981 LM 100 8 0.523 1
Feature91 Metadata_3 Metadata_3 Metadata_3 0.278 0.439 0.533 NA 0.981 LM 100 29 0.782 1
Feature91 Metadata_4 Metadata_4 Metadata_4 0.324 0.56 0.568 NA 0.981 LM 100 29 0.813 1
Feature91 Metadata_5 Metadata_5 Metadata_5 0.145 0.441 0.746 NA 0.981 LM 100 29 0.763 1
Feature93 Metadata_2 Metadata_2 Metadata_2 0.0279 0.302 0.927 NA 0.981 LM 100 68 0.692 1
Feature93 Metadata_3 Metadata_3 Metadata_3 -0.172 0.283 0.545 NA 0.981 LM 100 68 0.793 1
Feature94 Metadata_2 Metadata_2 Metadata_2 -0.37 0.37 0.32 NA 0.981 LM 100 94 0.517 1
Feature94 Metadata_3 Metadata_3 Metadata_3 0.0508 0.373 0.892 NA 0.981 LM 100 94 0.976 1
Feature94 Metadata_4 Metadata_4 Metadata_4 0.397 0.366 0.281 NA 0.981 LM 100 94 0.483 1
Feature94 Metadata_5 Metadata_5 Metadata_5 0.278 0.373 0.458 NA 0.981 LM 100 94 0.688 1
Feature95 Metadata_1 Metadata_1 Metadata_1 0.0381 0.38 0.924 NA 0.981 LM 100 10 0.787 1
Feature95 Metadata_5 Metadata_5 Metadata_5 0.0279 0.314 0.933 NA 0.981 LM 100 10 0.778 1
Feature96 Metadata_2 Metadata_2 Metadata_2 0.156 0.661 0.819 NA 0.981 LM 100 15 0.816 1
Feature96 Metadata_3 Metadata_3 Metadata_3 -0.142 0.424 0.745 NA 0.981 LM 100 15 0.466 1
Feature96 Metadata_5 Metadata_5 Metadata_5 0.00709 0.397 0.986 NA 0.987 LM 100 15 0.913 1
Feature97 Metadata_3 Metadata_3 Metadata_3 0.312 0.503 0.547 NA 0.981 LM 100 17 0.795 1
Feature97 Metadata_4 Metadata_4 Metadata_4 0.264 0.566 0.65 NA 0.981 LM 100 17 0.878 1
Feature51 Metadata_2 Metadata_2 Metadata_2 2.95 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.00409 0.0858
Feature64 Metadata_2 Metadata_2 Metadata_2 -3.71 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.00764 0.146
Feature95 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 10 0.0102 0.18
Feature29 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.0665 0.746
Feature41 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.0779 0.793
Feature100 Metadata_2 Metadata_2 Metadata_2 -1.2 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.268 0.984
Feature15 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.286 0.984
Feature15 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.323 0.984
Feature15 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.362 0.984
Feature17 Metadata_1 Metadata_1 Metadata_1 6.37 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.419 0.984
Feature17 Metadata_2 Metadata_2 Metadata_2 -5.77 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.146 0.984
Feature18 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.36 0.984
Feature2 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.233 0.984
Feature2 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.35 0.984
Feature3 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.192 0.984
Feature31 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.292 0.984
Feature31 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.347 0.984
Feature34 Metadata_1 Metadata_1 Metadata_1 -1.79 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.323 0.984
Feature34 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.329 0.984
Feature34 Metadata_4 Metadata_4 Metadata_4 -5.56 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.381 0.984
Feature36 Metadata_1 Metadata_1 Metadata_1 0.645 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.401 0.984
Feature36 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.415 0.984
Feature37 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.417 0.984
Feature38 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.283 0.984
Feature41 Metadata_2 Metadata_2 Metadata_2 -1.9 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.262 0.984
Feature41 Metadata_3 Metadata_3 Metadata_3 -0.475 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.269 0.984
Feature41 Metadata_4 Metadata_4 Metadata_4 6.48 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.324 0.984
Feature41 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.113 0.984
Feature46 Metadata_3 Metadata_3 Metadata_3 -0.6 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.18 0.984
Feature48 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.344 0.984
Feature48 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.392 0.984
Feature48 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.368 0.984
Feature48 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.274 0.984
Feature50 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.301 0.984
Feature51 Metadata_3 Metadata_3 Metadata_3 1.99 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.174 0.984
Feature53 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.198 0.984
Feature53 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.413 0.984
Feature54 Metadata_4 Metadata_4 Metadata_4 -0.53 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.307 0.984
Feature56 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.419 0.984
Feature56 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.225 0.984
Feature69 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.211 0.984
Feature70 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.219 0.984
Feature70 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.289 0.984
Feature71 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.381 0.984
Feature73 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.167 0.984
Feature73 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.154 0.984
Feature81 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.359 0.984
Feature81 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.364 0.984
Feature82 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.275 0.984
Feature84 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.362 0.984
Feature99 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.36 0.984
Feature99 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.377 0.984
Feature48 Metadata_2 Metadata_2 Metadata_2 -0.634 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.434 0.998
Feature100 Metadata_1 Metadata_1 Metadata_1 0.909 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.551 1
Feature100 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.695 1
Feature100 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.918 1
Feature100 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.682 1
Feature15 Metadata_2 Metadata_2 Metadata_2 -0.457 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.63 1
Feature15 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.907 1
Feature17 Metadata_3 Metadata_3 Metadata_3 -9.24 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.823 1
Feature17 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.932 1
Feature17 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.997 1
Feature18 Metadata_1 Metadata_1 Metadata_1 -0.0668 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.961 1
Feature18 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.811 1
Feature18 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.963 1
Feature18 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.835 1
Feature2 Metadata_2 Metadata_2 Metadata_2 5.78 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.74 1
Feature2 Metadata_3 Metadata_3 Metadata_3 1.31 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.738 1
Feature2 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.739 1
Feature3 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.519 1
Feature3 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.999 1
Feature3 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.514 1
Feature3 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.659 1
Feature31 Metadata_1 Metadata_1 Metadata_1 0.676 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.901 1
Feature31 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.948 1
Feature31 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.705 1
Feature34 Metadata_2 Metadata_2 Metadata_2 -3.63 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.759 1
Feature34 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.986 1
Feature36 Metadata_2 Metadata_2 Metadata_2 0.644 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.821 1
Feature36 Metadata_3 Metadata_3 Metadata_3 -0.191 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.945 1
Feature36 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.713 1
Feature37 Metadata_1 Metadata_1 Metadata_1 -1.25 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.493 1
Feature37 Metadata_2 Metadata_2 Metadata_2 -6.07 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.95 1
Feature37 Metadata_3 Metadata_3 Metadata_3 -2.1 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.464 1
Feature37 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.933 1
Feature38 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.642 1
Feature38 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.497 1
Feature38 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.974 1
Feature38 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.577 1
Feature43 Metadata_1 Metadata_1 Metadata_1 0.0821 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.474 1
Feature43 Metadata_2 Metadata_2 Metadata_2 0.344 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.911 1
Feature43 Metadata_3 Metadata_3 Metadata_3 1.08 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.504 1
Feature43 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.9 1
Feature43 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 4 0.446 1
Feature46 Metadata_1 Metadata_1 Metadata_1 0.346 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.814 1
Feature46 Metadata_2 Metadata_2 Metadata_2 -0.444 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.441 1
Feature46 Metadata_4 Metadata_4 Metadata_4 -0.122 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.874 1
Feature46 Metadata_5 Metadata_5 Metadata_5 1.8 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 6 0.52 1
Feature50 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.729 1
Feature50 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.693 1
Feature50 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.561 1
Feature50 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.624 1
Feature51 Metadata_1 Metadata_1 Metadata_1 -3.79 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.784 1
Feature51 Metadata_4 Metadata_4 Metadata_4 -1.91 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.481 1
Feature51 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.642 1
Feature53 Metadata_2 Metadata_2 Metadata_2 -0.181 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.749 1
Feature53 Metadata_3 Metadata_3 Metadata_3 1.73 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.777 1
Feature53 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.616 1
Feature54 Metadata_1 Metadata_1 Metadata_1 -0.286 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.694 1
Feature54 Metadata_2 Metadata_2 Metadata_2 -0.582 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.884 1
Feature54 Metadata_3 Metadata_3 Metadata_3 -0.292 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.763 1
Feature54 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.782 1
Feature56 Metadata_1 Metadata_1 Metadata_1 0.658 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.773 1
Feature56 Metadata_2 Metadata_2 Metadata_2 10.1 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.986 1
Feature56 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.593 1
Feature64 Metadata_1 Metadata_1 Metadata_1 -5.19 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.855 1
Feature64 Metadata_3 Metadata_3 Metadata_3 1.01 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.877 1
Feature64 Metadata_4 Metadata_4 Metadata_4 -3.67 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.616 1
Feature64 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 5 0.661 1
Feature67 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.52 1
Feature67 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.66 1
Feature67 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.553 1
Feature67 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.84 1
Feature67 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.578 1
Feature69 Metadata_1 Metadata_1 Metadata_1 0.901 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.567 1
Feature69 Metadata_2 Metadata_2 Metadata_2 -2.62 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.504 1
Feature69 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.661 1
Feature69 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.516 1
Feature70 Metadata_1 Metadata_1 Metadata_1 -7.14 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.923 1
Feature70 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.715 1
Feature70 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.962 1
Feature71 Metadata_1 Metadata_1 Metadata_1 1.47 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.947 1
Feature71 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.64 1
Feature71 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.907 1
Feature71 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.458 1
Feature73 Metadata_2 Metadata_2 Metadata_2 -4.41 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.737 1
Feature73 Metadata_4 Metadata_4 Metadata_4 -5.59 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.961 1
Feature73 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 3 0.645 1
Feature76 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.635 1
Feature76 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.789 1
Feature76 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.605 1
Feature76 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.836 1
Feature76 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.603 1
Feature81 Metadata_2 Metadata_2 Metadata_2 0.881 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.952 1
Feature81 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.913 1
Feature81 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.729 1
Feature82 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.478 1
Feature82 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.818 1
Feature82 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.515 1
Feature82 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.578 1
Feature84 Metadata_1 Metadata_1 Metadata_1 -1.55 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.992 1
Feature84 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.626 1
Feature84 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.945 1
Feature84 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.819 1
Feature88 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.528 1
Feature88 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.896 1
Feature88 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.524 1
Feature88 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.899 1
Feature88 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.58 1
Feature92 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.571 1
Feature92 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.821 1
Feature92 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.535 1
Feature92 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.804 1
Feature92 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.574 1
Feature98 Metadata_1 Metadata_1 Metadata_1 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.634 1
Feature98 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.772 1
Feature98 Metadata_3 Metadata_3 Metadata_3 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.663 1
Feature98 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.833 1
Feature98 Metadata_5 Metadata_5 Metadata_5 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 1 0.613 1
Feature99 Metadata_1 Metadata_1 Metadata_1 1.23 NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.904 1
Feature99 Metadata_2 Metadata_2 Metadata_2 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.86 1
Feature99 Metadata_4 Metadata_4 Metadata_4 NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 100 2 0.744 1

4.2 Random effects (repeated sampling)

Certain studies have a natural “grouping” of sample observations, such as by subject in longitudinal designs or by family in family designs. It is important for statistic analysis to address the non-independence between samples belonging to the same group. MaAsLin 3 provides a simple interface for this with random effects, where the user can specify the grouping variable to run a mixed effect model instead. This grouping variable can be provided with the random_effects parameter or specified in the model with (1|grouping_variable). This will allow a “random intercept” or a per-group adjustment to the model intercept. More complicated random effects can be specified in the formula in accordance with lme4 formula parsing. For example, we note that HMP2 is a longitudinal design where the same subject (column participant_id) can have multiple samples. We thus ask MaAsLin 3 to use subject as its random effect grouping variable. These models take longer to fit because of their complexity, and the fitting may fail more often because of the extra terms. However, it is important to account for this non-independence, and MaAsLin 3 is still able to fit complex models with thousands of samples and thousands of features in a few hours (and increasing the CPUs used with cores can help).

param_list <- list(input_data = taxa_table, 
                   input_metadata = metadata, 
                   output = 'random_effects_output', 
                   formula = '~ diagnosis + dysbiosis_state + antibiotics + age + reads + (1|participant_id)',
                   plot_summary_plot = F,
                   plot_associations = F,
                   cores = 2)

fit_out <- maaslin3(param_list)
feature metadata value name coef stderr pval_individual qval_individual model N N.not.zero pval_joint qval_joint
Phocaeicola_sartorii reads reads reads 0.143 0.0828 7.4e-05 0.00232 abundance 1530 424 1.02e-37 2.07e-35
Phocaeicola_sartorii reads reads reads 1.58 0.123 5.1e-38 4.49e-36 prevalence 1530 424 1.02e-37 2.07e-35
Bacteroides_eggerthii reads reads reads 0.105 0.105 0.00525 0.0715 abundance 1530 409 3.94e-20 5e-18
Bacteroides_eggerthii reads reads reads 1.23 0.132 1.97e-20 1.39e-18 prevalence 1530 409 3.94e-20 5e-18
Phocaeicola_dorei reads reads reads -0.0945 0.0993 1 1 abundance 1530 769 3.02e-19 3.41e-17
Phocaeicola_dorei reads reads reads 0.918 0.101 1.51e-19 9.99e-18 prevalence 1530 769 3.02e-19 3.41e-17
Bacteroides_faecis reads reads reads -0.187 0.0885 1 1 abundance 1530 434 1.8e-17 1.82e-15
Bacteroides_faecis reads reads reads 1.19 0.139 8.98e-18 5.58e-16 prevalence 1530 434 1.8e-17 1.82e-15
Clostridiales_bacterium reads reads reads -0.0971 0.0639 1 1 abundance 1530 985 2.92e-17 2.7e-15
Clostridiales_bacterium reads reads reads 1 0.118 1.46e-17 8.59e-16 prevalence 1530 985 2.92e-17 2.7e-15
Blautia_faecis reads reads reads -0.282 0.0671 1 1 abundance 1530 1120 2.03e-15 1.72e-13
Blautia_faecis reads reads reads 0.787 0.098 1.02e-15 5.65e-14 prevalence 1530 1120 2.03e-15 1.72e-13
Flavonifractor_plautii reads reads reads -0.117 0.0538 1 1 abundance 1530 1220 6.51e-15 5.08e-13
Flavonifractor_plautii reads reads reads 0.861 0.109 3.25e-15 1.72e-13 prevalence 1530 1220 6.51e-15 5.08e-13
Enterocloster_bolteae reads reads reads -0.281 0.0799 1 1 abundance 1530 866 8.14e-15 5.9e-13
Enterocloster_bolteae reads reads reads 0.664 0.0845 4.07e-15 2.05e-13 prevalence 1530 866 8.14e-15 5.9e-13
Dysosmobacter_welbionis reads reads reads -0.122 0.0474 1 1 abundance 1530 1190 1.83e-14 1.16e-12
Ruthenibacterium_lactatiformans reads reads reads -0.51 0.0938 0.00064 0.0137 abundance 1530 797 1.77e-14 1.16e-12
Dysosmobacter_welbionis reads reads reads 0.952 0.123 9.14e-15 4.2e-13 prevalence 1530 1190 1.83e-14 1.16e-12
Ruthenibacterium_lactatiformans reads reads reads 0.603 0.0778 8.87e-15 4.2e-13 prevalence 1530 797 1.77e-14 1.16e-12
Clostridium_sp_AF34_10BH reads reads reads -0.216 0.0789 1 1 abundance 1530 960 4.95e-13 2.96e-11
Clostridium_sp_AF34_10BH reads reads reads 0.689 0.0941 2.47e-13 1.09e-11 prevalence 1530 960 4.95e-13 2.96e-11
Clostridium_sp_AT4 reads reads reads -0.383 0.0885 1 1 abundance 1530 528 5.54e-13 3.13e-11
Clostridium_sp_AT4 reads reads reads 0.732 0.1 2.77e-13 1.17e-11 prevalence 1530 528 5.54e-13 3.13e-11
Ruminococcus_torques reads reads reads -0.31 0.0696 1 1 abundance 1530 1090 5.68e-12 3.03e-10
Ruminococcus_torques reads reads reads 0.677 0.0969 2.84e-12 1.15e-10 prevalence 1530 1090 5.68e-12 3.03e-10
Blautia_wexlerae reads reads reads -0.316 0.0604 1 1 abundance 1530 1300 1.29e-11 6.55e-10
Blautia_wexlerae reads reads reads 0.746 0.109 6.46e-12 2.53e-10 prevalence 1530 1300 1.29e-11 6.55e-10
Faecalibacterium_prausnitzii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.93 0.255 1.4e-06 7.88e-05 abundance 1530 1370 1.45e-11 7.01e-10
Faecalibacterium_prausnitzii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -5.05 0.737 7.25e-12 2.74e-10 prevalence 1530 1370 1.45e-11 7.01e-10
Escherichia_coli dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.04 0.398 1.37e-11 8.84e-09 abundance 1530 707 2.75e-11 1.27e-09
Escherichia_coli dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.975 0.35 0.00535 0.022 prevalence 1530 707 2.75e-11 1.27e-09
Lacrimispora_amygdalina reads reads reads -0.0404 0.0656 1 1 abundance 1530 865 3.14e-11 1.38e-09
Lacrimispora_amygdalina reads reads reads 0.694 0.103 1.57e-11 5.72e-10 prevalence 1530 865 3.14e-11 1.38e-09
Roseburia_hominis reads reads reads -0.251 0.0905 1 1 abundance 1530 876 3.28e-11 1.39e-09
Roseburia_hominis reads reads reads 0.542 0.0805 1.64e-11 5.77e-10 prevalence 1530 876 3.28e-11 1.39e-09
Bacteroides_ovatus reads reads reads 0.147 0.0495 1.96e-11 8.84e-09 abundance 1530 1180 3.93e-11 1.59e-09
Bacteroides_ovatus reads reads reads 0.695 0.15 3.49e-06 3.58e-05 prevalence 1530 1180 3.93e-11 1.59e-09
Clostridium_sp_AM22_11AC reads reads reads -0.261 0.0872 1 1 abundance 1530 730 7.59e-11 2.96e-09
Clostridium_sp_AM22_11AC reads reads reads 0.739 0.112 3.8e-11 1.29e-09 prevalence 1530 730 7.59e-11 2.96e-09
Clostridium_sp_AT4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 3 0.563 1.27e-10 3.8e-08 abundance 1530 528 2.53e-10 9.52e-09
Clostridium_sp_AT4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.69 0.518 0.00115 0.00617 prevalence 1530 528 2.53e-10 9.52e-09
Blautia_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.0591 0.493 0.198 0.601 abundance 1530 1120 3.11e-10 1.13e-08
Blautia_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.57 0.401 1.55e-10 5.13e-09 prevalence 1530 1120 3.11e-10 1.13e-08
Lachnospira_eligens reads reads reads -0.397 0.0744 1 1 abundance 1530 929 3.77e-10 1.32e-08
Lachnospira_eligens reads reads reads 0.649 0.102 1.89e-10 6.04e-09 prevalence 1530 929 3.77e-10 1.32e-08
Blautia_obeum reads reads reads -0.214 0.0803 1 1 abundance 1530 899 3.99e-10 1.35e-08
Blautia_obeum reads reads reads 0.567 0.0891 2e-10 6.21e-09 prevalence 1530 899 3.99e-10 1.35e-08
Clostridium_sp_AF34_10BH dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.625 0.613 0.0317 0.226 abundance 1530 960 7.93e-10 2.6e-08
Clostridium_sp_AF34_10BH dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.35 0.535 3.97e-10 1.2e-08 prevalence 1530 960 7.93e-10 2.6e-08
Clostridium_sp_AF20_17LB reads reads reads -0.119 0.0835 1 1 abundance 1530 654 8.67e-10 2.75e-08
Clostridium_sp_AF20_17LB reads reads reads 0.636 0.102 4.34e-10 1.27e-08 prevalence 1530 654 8.67e-10 2.75e-08
Bifidobacterium_longum reads reads reads -0.358 0.0854 1 1 abundance 1530 843 9.44e-10 2.87e-08
Dysosmobacter_welbionis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.0338 0.297 0.0265 0.204 abundance 1530 1190 9.61e-10 2.87e-08
Bifidobacterium_longum reads reads reads 0.581 0.0932 4.72e-10 1.34e-08 prevalence 1530 843 9.44e-10 2.87e-08
Dysosmobacter_welbionis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.87 0.462 4.8e-10 1.34e-08 prevalence 1530 1190 9.61e-10 2.87e-08
Clostridium_fessum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.54 0.502 0.0937 0.406 abundance 1530 926 1.53e-09 4.42e-08
Clostridium_fessum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.65 0.593 7.63e-10 2.07e-08 prevalence 1530 926 1.53e-09 4.42e-08
Clostridiaceae_bacterium reads reads reads -0.18 0.0647 1 1 abundance 1530 1110 1.7e-09 4.8e-08
Clostridiaceae_bacterium reads reads reads 0.574 0.0935 8.52e-10 2.25e-08 prevalence 1530 1110 1.7e-09 4.8e-08
Parabacteroides_distasonis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.24 0.272 0.0456 0.285 abundance 1530 1140 2.47e-09 6.77e-08
Parabacteroides_distasonis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.45 0.568 1.23e-09 3.18e-08 prevalence 1530 1140 2.47e-09 6.77e-08
Sutterella_wadsworthensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.27 0.319 1.48e-09 3.17e-07 abundance 1530 536 2.97e-09 7.92e-08
Sutterella_wadsworthensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.67 0.901 4.49e-05 0.000362 prevalence 1530 536 2.97e-09 7.92e-08
Fusicatenibacter_saccharivorans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.0245 0.362 0.047 0.289 abundance 1530 1120 3.19e-09 8.29e-08
Fusicatenibacter_saccharivorans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.59 0.429 1.59e-09 4.01e-08 prevalence 1530 1120 3.19e-09 8.29e-08
Phocaeicola_vulgatus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.39 0.279 1.76e-09 3.17e-07 abundance 1530 1290 3.52e-09 8.92e-08
Phocaeicola_vulgatus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.68 0.578 3.39e-06 3.51e-05 prevalence 1530 1290 3.52e-09 8.92e-08
Bacteroides_uniformis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.03 0.267 6.74e-07 4.05e-05 abundance 1530 1240 4.68e-09 1.16e-07
Bacteroides_uniformis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.49 0.585 2.34e-09 5.75e-08 prevalence 1530 1240 4.68e-09 1.16e-07
Bacteroides_finegoldii reads reads reads -0.186 0.0982 1 1 abundance 1530 333 5.72e-09 1.38e-07
Bacteroides_finegoldii reads reads reads 0.778 0.131 2.86e-09 6.87e-08 prevalence 1530 333 5.72e-09 1.38e-07
Bilophila_wadsworthia reads reads reads -0.17 0.071 1 1 abundance 1530 764 6.1e-09 1.42e-07
Clostridiales_bacterium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.995 0.592 0.611 1 abundance 1530 985 6.16e-09 1.42e-07
Bilophila_wadsworthia reads reads reads 0.678 0.114 3.05e-09 7.08e-08 prevalence 1530 764 6.1e-09 1.42e-07
Clostridiales_bacterium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.95 0.667 3.08e-09 7.08e-08 prevalence 1530 985 6.16e-09 1.42e-07
Fusicatenibacter_saccharivorans antibiotics Yes antibioticsYes -0.3 0.247 1 1 abundance 1530 1120 7.44e-09 1.68e-07
Fusicatenibacter_saccharivorans antibiotics Yes antibioticsYes -2.08 0.352 3.72e-09 8.37e-08 prevalence 1530 1120 7.44e-09 1.68e-07
Bacteroides_xylanisolvens reads reads reads -0.0265 0.0647 1 1 abundance 1530 959 8.77e-09 1.94e-07
Bacteroides_xylanisolvens reads reads reads 0.644 0.11 4.39e-09 9.66e-08 prevalence 1530 959 8.77e-09 1.94e-07
Prevotella_copri_clade_A reads reads reads 0.216 0.141 0.00453 0.0657 abundance 1530 289 1.06e-08 2.3e-07
Prevotella_copri_clade_A reads reads reads 0.685 0.117 5.31e-09 1.15e-07 prevalence 1530 289 1.06e-08 2.3e-07
Eubacterium_rectale dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.754 0.356 1 1 abundance 1530 1210 1.15e-08 2.43e-07
Eubacterium_rectale dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.9 0.498 5.74e-09 1.21e-07 prevalence 1530 1210 1.15e-08 2.43e-07
Dorea_longicatena reads reads reads -0.272 0.064 1 1 abundance 1530 1020 1.2e-08 2.48e-07
Dorea_longicatena reads reads reads 0.672 0.116 5.99e-09 1.24e-07 prevalence 1530 1020 1.2e-08 2.48e-07
Clostridium_leptum reads reads reads -0.407 0.0997 1 1 abundance 1530 652 1.27e-08 2.58e-07
Clostridium_leptum reads reads reads 0.521 0.0897 6.36e-09 1.29e-07 prevalence 1530 652 1.27e-08 2.58e-07
Coprococcus_comes reads reads reads -0.309 0.075 1 1 abundance 1530 759 1.56e-08 3.11e-07
Coprococcus_comes reads reads reads 0.605 0.105 7.82e-09 1.56e-07 prevalence 1530 759 1.56e-08 3.11e-07
Veillonella_parvula dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.35 0.521 9.42e-09 1.41e-06 abundance 1530 547 1.88e-08 3.68e-07
Veillonella_parvula dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.214 0.416 0.606 0.812 prevalence 1530 547 1.88e-08 3.68e-07
Clostridium_fessum reads reads reads -0.244 0.064 1 1 abundance 1530 926 2.43e-08 4.65e-07
Clostridium_fessum reads reads reads 0.662 0.116 1.21e-08 2.38e-07 prevalence 1530 926 2.43e-08 4.65e-07
Roseburia_inulinivorans antibiotics Yes antibioticsYes -0.212 0.384 1 1 abundance 1530 951 2.65e-08 4.98e-07
Roseburia_inulinivorans antibiotics Yes antibioticsYes -1.68 0.296 1.32e-08 2.55e-07 prevalence 1530 951 2.65e-08 4.98e-07
Anaerostipes_hadrus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.186 0.417 0.222 0.646 abundance 1530 1130 3.47e-08 6.41e-07
Anaerostipes_hadrus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.32 0.412 1.74e-08 3.28e-07 prevalence 1530 1130 3.47e-08 6.41e-07
Enterocloster_bolteae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.39 0.368 1.99e-08 2.56e-06 abundance 1530 866 3.99e-08 7.22e-07
Enterocloster_bolteae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.46 0.413 0.000391 0.00244 prevalence 1530 866 3.99e-08 7.22e-07
GGB3746_SGB5089 reads reads reads -0.339 0.0955 1 1 abundance 1530 651 4.52e-08 8.06e-07
GGB3746_SGB5089 reads reads reads 0.456 0.0816 2.26e-08 4.2e-07 prevalence 1530 651 4.52e-08 8.06e-07
Ruminococcus_gnavus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.53 0.394 2.5e-08 2.81e-06 abundance 1530 767 5e-08 8.74e-07
Ruminococcus_gnavus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.0165 0.36 0.963 0.996 prevalence 1530 767 5e-08 8.74e-07
Collinsella_aerofaciens reads reads reads -0.233 0.0819 1 1 abundance 1530 698 5.75e-08 9.89e-07
Collinsella_aerofaciens reads reads reads 0.548 0.0988 2.88e-08 5.24e-07 prevalence 1530 698 5.75e-08 9.89e-07
Faecalibacterium_SGB15315 reads reads reads 0.085 0.0969 1 1 abundance 1530 619 1.27e-07 2.14e-06
Faecalibacterium_SGB15315 reads reads reads 0.602 0.111 6.33e-08 1.13e-06 prevalence 1530 619 1.27e-07 2.14e-06
Clostridium_leptum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.976 1.02 0.782 1 abundance 1530 652 1.38e-07 2.3e-06
Clostridium_leptum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.45 0.639 6.91e-08 1.22e-06 prevalence 1530 652 1.38e-07 2.3e-06
Clostridium_symbiosum reads reads reads -0.602 0.105 8.94e-05 0.00268 abundance 1530 539 1.44e-07 2.35e-06
Clostridium_symbiosum reads reads reads 0.447 0.083 7.18e-08 1.24e-06 prevalence 1530 539 1.44e-07 2.35e-06
Roseburia_inulinivorans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.0873 0.493 0.113 0.447 abundance 1530 951 1.62e-07 2.61e-06
Roseburia_inulinivorans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.21 0.412 8.11e-08 1.38e-06 prevalence 1530 951 1.62e-07 2.61e-06
Clostridium_sp_AF34_10BH antibiotics Yes antibioticsYes -0.897 0.364 0.0591 0.32 abundance 1530 960 2.4e-07 3.77e-06
Klebsiella_pneumoniae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 3.22 0.686 1.21e-07 1.21e-05 abundance 1530 119 2.42e-07 3.77e-06
Clostridium_sp_AF34_10BH antibiotics Yes antibioticsYes -1.65 0.311 1.2e-07 2.01e-06 prevalence 1530 960 2.4e-07 3.77e-06
Klebsiella_pneumoniae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.43 0.363 8.14e-05 0.000619 prevalence 1530 119 2.42e-07 3.77e-06
Bacteroides_thetaiotaomicron dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.719 0.348 1 1 abundance 1530 1060 2.78e-07 4.28e-06
Bacteroides_thetaiotaomicron dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.35 0.636 1.39e-07 2.3e-06 prevalence 1530 1060 2.78e-07 4.28e-06
Blautia_wexlerae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.409 0.338 0.00113 0.0221 abundance 1530 1300 3.11e-07 4.72e-06
Blautia_wexlerae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.85 0.353 1.56e-07 2.53e-06 prevalence 1530 1300 3.11e-07 4.72e-06
Roseburia_hominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.687 0.566 0.0149 0.135 abundance 1530 876 3.3e-07 4.92e-06
Roseburia_hominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.04 0.389 1.65e-07 2.64e-06 prevalence 1530 876 3.3e-07 4.92e-06
Faecalibacterium_SGB15346 reads reads reads -0.231 0.0767 1 1 abundance 1530 743 3.49e-07 5.13e-06
Faecalibacterium_SGB15346 reads reads reads 0.568 0.109 1.74e-07 2.75e-06 prevalence 1530 743 3.49e-07 5.13e-06
Roseburia_inulinivorans reads reads reads -0.158 0.0757 1 1 abundance 1530 951 3.63e-07 5.26e-06
Roseburia_inulinivorans reads reads reads 0.464 0.089 1.81e-07 2.82e-06 prevalence 1530 951 3.63e-07 5.26e-06
Roseburia_sp_AF02_12 reads reads reads -0.239 0.167 1 1 abundance 1530 363 3.89e-07 5.56e-06
Roseburia_sp_AF02_12 reads reads reads 0.527 0.101 1.94e-07 2.98e-06 prevalence 1530 363 3.89e-07 5.56e-06
Eubacterium_rectale dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.672 0.598 0.122 0.463 abundance 1530 1210 4.23e-07 5.96e-06
Eubacterium_rectale dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.77 0.727 2.12e-07 3.19e-06 prevalence 1530 1210 4.23e-07 5.96e-06
GGB3746_SGB5089 antibiotics Yes antibioticsYes -0.341 0.472 1 1 abundance 1530 651 5.1e-07 7.09e-06
GGB3746_SGB5089 antibiotics Yes antibioticsYes -1.74 0.338 2.55e-07 3.79e-06 prevalence 1530 651 5.1e-07 7.09e-06
Enterocloster_bolteae antibiotics Yes antibioticsYes 1.31 0.292 2.69e-07 2.42e-05 abundance 1530 866 5.38e-07 7.38e-06
Enterocloster_bolteae antibiotics Yes antibioticsYes -0.398 0.268 0.137 0.286 prevalence 1530 866 5.38e-07 7.38e-06
GGB33469_SGB15236 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -5.71 0.978 5.75e-07 3.7e-05 abundance 1530 293 5.75e-07 7.79e-06
Veillonella_dispar dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.05 0.53 3.3e-07 2.7e-05 abundance 1530 526 6.6e-07 8.81e-06
Veillonella_dispar dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.209 0.409 0.61 0.814 prevalence 1530 526 6.6e-07 8.81e-06
Escherichia_coli antibiotics Yes antibioticsYes 1.75 0.382 3.81e-07 2.85e-05 abundance 1530 707 7.61e-07 1e-05
Escherichia_coli antibiotics Yes antibioticsYes -0.681 0.258 0.00823 0.0312 prevalence 1530 707 7.61e-07 1e-05
Vescimonas_coprocola reads reads reads -0.475 0.0987 0.00387 0.059 abundance 1530 599 7.76e-07 1.01e-05
Vescimonas_coprocola reads reads reads 0.538 0.106 3.88e-07 5.7e-06 prevalence 1530 599 7.76e-07 1.01e-05
Dorea_longicatena dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.531 0.372 1 1 abundance 1530 1020 7.91e-07 1.02e-05
Dorea_longicatena dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.61 0.515 3.96e-07 5.73e-06 prevalence 1530 1020 7.91e-07 1.02e-05
Clostridium_symbiosum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.87 0.5 4.12e-07 2.85e-05 abundance 1530 539 8.24e-07 1.04e-05
Clostridium_symbiosum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.81 0.384 0.0349 0.0979 prevalence 1530 539 8.24e-07 1.04e-05
Bacteroides_thetaiotaomicron reads reads reads 0.0227 0.0578 1 1 abundance 1530 1060 8.92e-07 1.12e-05
Bacteroides_thetaiotaomicron reads reads reads 0.605 0.12 4.46e-07 6.37e-06 prevalence 1530 1060 8.92e-07 1.12e-05
Bacteroides_caccae reads reads reads -0.0676 0.0542 1 1 abundance 1530 958 9.65e-07 1.2e-05
Bacteroides_caccae reads reads reads 0.662 0.132 4.83e-07 6.8e-06 prevalence 1530 958 9.65e-07 1.2e-05
Bacteroides_xylanisolvens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.19 0.402 0.00021 0.00557 abundance 1530 959 1.11e-06 1.35e-05
Bacteroides_xylanisolvens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.71 0.542 5.53e-07 7.69e-06 prevalence 1530 959 1.11e-06 1.35e-05
Eubacterium_siraeum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.23 1.12 0.631 1 abundance 1530 565 1.17e-06 1.41e-05
Eubacterium_siraeum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.02 0.605 5.85e-07 8.03e-06 prevalence 1530 565 1.17e-06 1.41e-05
Ruminococcus_gnavus reads reads reads -0.39 0.0903 1 1 abundance 1530 767 1.42e-06 1.69e-05
Ruminococcus_gnavus reads reads reads 0.386 0.0777 7.08e-07 9.59e-06 prevalence 1530 767 1.42e-06 1.69e-05
Alistipes_shahii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.49 0.578 0.00196 0.0345 abundance 1530 673 1.49e-06 1.75e-05
Alistipes_shahii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.65 0.737 7.43e-07 9.94e-06 prevalence 1530 673 1.49e-06 1.75e-05
Parasutterella_excrementihominis reads reads reads -0.148 0.0718 1 1 abundance 1530 699 1.6e-06 1.86e-05
Parasutterella_excrementihominis reads reads reads 0.546 0.111 7.99e-07 1.06e-05 prevalence 1530 699 1.6e-06 1.86e-05
Bacteroides_ovatus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.17 0.322 0.14 0.501 abundance 1530 1180 2.26e-06 2.6e-05
Bacteroides_ovatus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.99 0.615 1.13e-06 1.47e-05 prevalence 1530 1180 2.26e-06 2.6e-05
Faecalibacterium_prausnitzii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.788 0.286 0.0621 0.323 abundance 1530 1370 2.31e-06 2.64e-05
Faecalibacterium_prausnitzii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -5.34 1.1 1.16e-06 1.49e-05 prevalence 1530 1370 2.31e-06 2.64e-05
Candidatus_Cibionibacter_quicibialis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.172 0.553 0.344 0.811 abundance 1530 933 2.43e-06 2.74e-05
Candidatus_Cibionibacter_quicibialis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.26 0.672 1.22e-06 1.55e-05 prevalence 1530 933 2.43e-06 2.74e-05
Anaerostipes_hadrus antibiotics Yes antibioticsYes -0.075 0.28 1 1 abundance 1530 1130 2.87e-06 3.2e-05
Anaerostipes_hadrus antibiotics Yes antibioticsYes -1.43 0.297 1.43e-06 1.81e-05 prevalence 1530 1130 2.87e-06 3.2e-05
Parabacteroides_distasonis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.29 0.448 0.0215 0.177 abundance 1530 1140 3.13e-06 3.45e-05
Parabacteroides_distasonis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -5.72 1.19 1.56e-06 1.94e-05 prevalence 1530 1140 3.13e-06 3.45e-05
Blautia_wexlerae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.599 0.444 0.438 0.895 abundance 1530 1300 3.56e-06 3.88e-05
Blautia_wexlerae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.57 0.539 1.78e-06 2.19e-05 prevalence 1530 1300 3.56e-06 3.88e-05
Bacteroides_ovatus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.593 0.449 0.0591 0.32 abundance 1530 1180 3.69e-06 3.99e-05
Bacteroides_ovatus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -5.97 1.25 1.85e-06 2.24e-05 prevalence 1530 1180 3.69e-06 3.99e-05
Ruminococcus_bicirculans antibiotics Yes antibioticsYes -1.13 0.437 0.0356 0.243 abundance 1530 678 3.96e-06 4.23e-05
Ruminococcus_bicirculans antibiotics Yes antibioticsYes -1.65 0.346 1.98e-06 2.38e-05 prevalence 1530 678 3.96e-06 4.23e-05
Blautia_obeum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.386 0.52 0.0381 0.254 abundance 1530 899 4.26e-06 4.47e-05
Fusicatenibacter_saccharivorans reads reads reads -0.304 0.0584 1 1 abundance 1530 1120 4.27e-06 4.47e-05
Blautia_obeum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.23 0.47 2.13e-06 2.51e-05 prevalence 1530 899 4.26e-06 4.47e-05
Fusicatenibacter_saccharivorans reads reads reads 0.525 0.111 2.13e-06 2.51e-05 prevalence 1530 1120 4.27e-06 4.47e-05
Firmicutes_bacterium_AF16_15 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.54 0.638 0.00396 0.0594 abundance 1530 827 4.38e-06 4.49e-05
Roseburia_hominis antibiotics Yes antibioticsYes -0.375 0.379 1 1 abundance 1530 876 4.34e-06 4.49e-05
Firmicutes_bacterium_AF16_15 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.35 0.497 2.19e-06 2.52e-05 prevalence 1530 827 4.38e-06 4.49e-05
Roseburia_hominis antibiotics Yes antibioticsYes -1.29 0.272 2.17e-06 2.52e-05 prevalence 1530 876 4.34e-06 4.49e-05
Clostridiaceae_bacterium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.147 0.397 0.0343 0.239 abundance 1530 1110 5e-06 5.06e-05
Eubacterium_rectale antibiotics Yes antibioticsYes -0.4 0.255 1 1 abundance 1530 1210 5.06e-06 5.06e-05
Odoribacter_splanchnicus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.84 0.436 0.00893 0.103 abundance 1530 757 5.08e-06 5.06e-05
Clostridiaceae_bacterium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.93 0.41 2.5e-06 2.83e-05 prevalence 1530 1110 5e-06 5.06e-05
Eubacterium_rectale antibiotics Yes antibioticsYes -1.71 0.364 2.53e-06 2.83e-05 prevalence 1530 1210 5.06e-06 5.06e-05
Odoribacter_splanchnicus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.7 0.787 2.54e-06 2.83e-05 prevalence 1530 757 5.08e-06 5.06e-05
Parabacteroides_merdae reads reads reads 0.0462 0.0545 1 1 abundance 1530 826 5.36e-06 5.29e-05
Parabacteroides_merdae reads reads reads 0.588 0.125 2.68e-06 2.95e-05 prevalence 1530 826 5.36e-06 5.29e-05
Roseburia_faecis antibiotics Yes antibioticsYes -0.723 0.382 0.179 0.57 abundance 1530 922 5.88e-06 5.74e-05
Roseburia_faecis antibiotics Yes antibioticsYes -1.42 0.304 2.94e-06 3.21e-05 prevalence 1530 922 5.88e-06 5.74e-05
Firmicutes_bacterium_AF16_15 reads reads reads -0.289 0.0873 1 1 abundance 1530 827 6.01e-06 5.81e-05
Firmicutes_bacterium_AF16_15 reads reads reads 0.444 0.095 3e-06 3.24e-05 prevalence 1530 827 6.01e-06 5.81e-05
Enterocloster_clostridioformis reads reads reads -0.472 0.141 0.0462 0.287 abundance 1530 312 6.74e-06 6.36e-05
Flavonifractor_plautii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.00521 0.282 0.0133 0.126 abundance 1530 1220 6.72e-06 6.36e-05
Ruthenibacterium_lactatiformans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.262 0.587 0.104 0.428 abundance 1530 797 6.77e-06 6.36e-05
Enterocloster_clostridioformis reads reads reads 0.492 0.106 3.37e-06 3.51e-05 prevalence 1530 312 6.74e-06 6.36e-05
Flavonifractor_plautii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2 0.429 3.36e-06 3.51e-05 prevalence 1530 1220 6.72e-06 6.36e-05
Ruthenibacterium_lactatiformans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.9 0.409 3.38e-06 3.51e-05 prevalence 1530 797 6.77e-06 6.36e-05
Bilophila_wadsworthia dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.82 0.601 0.0611 0.321 abundance 1530 764 7.3e-06 6.8e-05
Bilophila_wadsworthia dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.75 0.595 3.65e-06 3.71e-05 prevalence 1530 764 7.3e-06 6.8e-05
Dysosmobacter_welbionis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.02 0.401 0.0555 0.318 abundance 1530 1190 1.06e-05 9.82e-05
Dysosmobacter_welbionis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.57 0.785 5.32e-06 5.36e-05 prevalence 1530 1190 1.06e-05 9.82e-05
Alistipes_shahii reads reads reads 0.134 0.0706 5.7e-06 0.000302 abundance 1530 673 1.14e-05 0.000104
Alistipes_shahii reads reads reads 0.328 0.122 0.00727 0.0282 prevalence 1530 673 1.14e-05 0.000104
Bifidobacterium_longum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.39 0.458 6.39e-06 0.00032 abundance 1530 843 1.28e-05 0.000116
Bifidobacterium_longum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.09 0.441 0.0136 0.047 prevalence 1530 843 1.28e-05 0.000116
Dysosmobacter_sp_BX15 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.07 0.706 0.000831 0.017 abundance 1530 621 1.63e-05 0.000147
Dysosmobacter_sp_BX15 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.97 0.665 8.17e-06 8.15e-05 prevalence 1530 621 1.63e-05 0.000147
Bacteroides_fragilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.07 0.393 8.71e-06 0.000413 abundance 1530 787 1.74e-05 0.000155
Bacteroides_fragilis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.37 0.57 3.23e-05 0.000282 prevalence 1530 787 1.74e-05 0.000155
Bifidobacterium_adolescentis reads reads reads -0.25 0.113 1 1 abundance 1530 427 2.01e-05 0.000177
Bifidobacterium_adolescentis reads reads reads 0.459 0.104 1.01e-05 9.93e-05 prevalence 1530 427 2.01e-05 0.000177
Coprococcus_comes dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.79 0.595 0.0671 0.347 abundance 1530 759 2.5e-05 0.000219
Coprococcus_comes dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.29 0.524 1.25e-05 0.000122 prevalence 1530 759 2.5e-05 0.000219
Roseburia_intestinalis antibiotics Yes antibioticsYes -0.93 0.401 0.0729 0.36 abundance 1530 842 2.75e-05 0.000238
Roseburia_intestinalis antibiotics Yes antibioticsYes -1.17 0.27 1.37e-05 0.000133 prevalence 1530 842 2.75e-05 0.000238
Lachnospira_eligens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.0858 0.542 0.15 0.523 abundance 1530 929 2.85e-05 0.000245
Lachnospira_eligens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.09 0.481 1.42e-05 0.000137 prevalence 1530 929 2.85e-05 0.000245
Alistipes_putredinis reads reads reads -0.0798 0.0546 1 1 abundance 1530 873 2.91e-05 0.000248
Alistipes_putredinis reads reads reads 0.48 0.111 1.46e-05 0.000139 prevalence 1530 873 2.91e-05 0.000248
Bacteroides_finegoldii antibiotics Yes antibioticsYes 1.33 0.349 1.5e-05 0.000674 abundance 1530 333 3e-05 0.000254
Bacteroides_finegoldii antibiotics Yes antibioticsYes 0.9 0.439 0.0401 0.109 prevalence 1530 333 3e-05 0.000254
Flavonifractor_plautii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.236 0.369 1 1 abundance 1530 1220 3.55e-05 0.000296
Parabacteroides_merdae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.29 0.339 0.0787 0.375 abundance 1530 826 3.55e-05 0.000296
Flavonifractor_plautii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.48 0.577 1.77e-05 0.000166 prevalence 1530 1220 3.55e-05 0.000296
Parabacteroides_merdae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.16 0.503 1.78e-05 0.000166 prevalence 1530 826 3.55e-05 0.000296
Candidatus_Cibionibacter_quicibialis reads reads reads -0.232 0.0735 1 1 abundance 1530 933 3.85e-05 0.000318
Candidatus_Cibionibacter_quicibialis reads reads reads 0.448 0.105 1.93e-05 0.000179 prevalence 1530 933 3.85e-05 0.000318
Clostridium_sp_AM22_11AC dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.21 0.58 0.37 0.838 abundance 1530 730 4.37e-05 0.000355
GGB3746_SGB5089 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.188 0.566 0.12 0.458 abundance 1530 651 4.4e-05 0.000355
Haemophilus_parainfluenzae age age age -0.236 0.176 1 1 abundance 1530 674 4.4e-05 0.000355
Clostridium_sp_AM22_11AC dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.35 0.552 2.18e-05 0.000199 prevalence 1530 730 4.37e-05 0.000355
GGB3746_SGB5089 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.89 0.445 2.2e-05 0.000199 prevalence 1530 651 4.4e-05 0.000355
Haemophilus_parainfluenzae age age age -0.852 0.201 2.2e-05 0.000199 prevalence 1530 674 4.4e-05 0.000355
Clostridium_sp_AF36_4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.121 0.664 0.388 0.852 abundance 1530 568 5.51e-05 0.00044
Clostridium_sp_AF36_4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.51 0.598 2.76e-05 0.000247 prevalence 1530 568 5.51e-05 0.00044
Ruminococcus_bromii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 2.22 0.688 2.84e-05 0.00122 abundance 1530 429 5.68e-05 0.00045
Ruminococcus_bromii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.92 0.563 0.000671 0.0039 prevalence 1530 429 5.68e-05 0.00045
Bacteroides_caccae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.613 0.55 0.515 0.945 abundance 1530 958 6.47e-05 0.000504
Hungatella_hathewayi reads reads reads -0.521 0.14 0.0177 0.156 abundance 1530 451 6.51e-05 0.000504
Roseburia_faecis reads reads reads -0.237 0.0858 1 1 abundance 1530 922 6.47e-05 0.000504
Bacteroides_caccae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -5.02 1.21 3.24e-05 0.000282 prevalence 1530 958 6.47e-05 0.000504
Hungatella_hathewayi reads reads reads 0.315 0.0758 3.25e-05 0.000282 prevalence 1530 451 6.51e-05 0.000504
Roseburia_faecis reads reads reads 0.346 0.0831 3.23e-05 0.000282 prevalence 1530 922 6.47e-05 0.000504
Haemophilus_parainfluenzae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.2 0.453 3.37e-05 0.00138 abundance 1530 674 6.73e-05 0.000518
Haemophilus_parainfluenzae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.262 0.36 0.467 0.687 prevalence 1530 674 6.73e-05 0.000518
Blautia_obeum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.184 0.589 0.456 0.9 abundance 1530 899 7.15e-05 0.000543
Dialister_invisus reads reads reads -0.3 0.0764 1 1 abundance 1530 726 7.17e-05 0.000543
Blautia_obeum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.47 0.598 3.57e-05 0.000306 prevalence 1530 899 7.15e-05 0.000543
Dialister_invisus reads reads reads 0.45 0.109 3.59e-05 0.000306 prevalence 1530 726 7.17e-05 0.000543
Ruminococcus_bicirculans reads reads reads -0.251 0.099 1 1 abundance 1530 678 7.28e-05 0.000547
Ruminococcus_bicirculans reads reads reads 0.387 0.0937 3.64e-05 0.000308 prevalence 1530 678 7.28e-05 0.000547
Waltera_intestinalis reads reads reads -0.273 0.129 1 1 abundance 1530 524 7.57e-05 0.000565
Waltera_intestinalis reads reads reads 0.411 0.0997 3.78e-05 0.000317 prevalence 1530 524 7.57e-05 0.000565
Faecalibacterium_prausnitzii reads reads reads -0.166 0.0402 1 1 abundance 1530 1370 7.77e-05 0.000568
Faecalibacterium_SGB15346 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.28 0.624 3.87e-05 0.00145 abundance 1530 743 7.74e-05 0.000568
Veillonella_parvula reads reads reads -0.698 0.123 3.86e-05 0.00145 abundance 1530 547 7.71e-05 0.000568
Faecalibacterium_prausnitzii reads reads reads 0.734 0.178 3.89e-05 0.000323 prevalence 1530 1370 7.77e-05 0.000568
Faecalibacterium_SGB15346 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.77 0.683 5.06e-05 0.000402 prevalence 1530 743 7.74e-05 0.000568
Veillonella_parvula reads reads reads 0.331 0.0807 4.21e-05 0.000342 prevalence 1530 547 7.71e-05 0.000568
Lachnospira_pectinoschiza dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.0173 0.612 0.246 0.678 abundance 1530 500 7.9e-05 0.000573
Lachnospira_pectinoschiza dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.48 0.604 3.95e-05 0.000326 prevalence 1530 500 7.9e-05 0.000573
Clostridium_sp_AM49_4BH diagnosis CD diagnosisCD -0.633 0.514 0.147 0.515 abundance 1530 344 8.15e-05 0.000586
Parabacteroides_distasonis antibiotics Yes antibioticsYes 0.459 0.162 4.1e-05 0.00148 abundance 1530 1140 8.2e-05 0.000586
Clostridium_sp_AM49_4BH diagnosis CD diagnosisCD -3.4 0.828 4.08e-05 0.000334 prevalence 1530 344 8.15e-05 0.000586
Parabacteroides_distasonis antibiotics Yes antibioticsYes 0.121 0.452 0.788 0.932 prevalence 1530 1140 8.2e-05 0.000586
Flavonifractor_plautii antibiotics Yes antibioticsYes 0.644 0.209 4.71e-05 0.00163 abundance 1530 1220 9.42e-05 0.000669
Flavonifractor_plautii antibiotics Yes antibioticsYes -0.822 0.312 0.00843 0.0317 prevalence 1530 1220 9.42e-05 0.000669
Clostridiales_bacterium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.274 0.549 1 1 abundance 1530 985 0.000101 0.000713
Clostridiales_bacterium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.9 0.716 5.06e-05 0.000402 prevalence 1530 985 0.000101 0.000713
Collinsella_SGB14861 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.894 0.75 1 1 abundance 1530 593 0.000103 0.000719
Collinsella_SGB14861 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.28 0.563 5.14e-05 0.000405 prevalence 1530 593 0.000103 0.000719
Lacrimispora_celerecrescens reads reads reads -0.233 0.0766 1 1 abundance 1530 756 0.000104 0.000722
Lacrimispora_celerecrescens reads reads reads 0.393 0.097 5.19e-05 0.000406 prevalence 1530 756 0.000104 0.000722
Bacteroides_uniformis reads reads reads 0.0531 0.0451 1 1 abundance 1530 1240 0.000124 0.000852
Bifidobacterium_longum antibiotics Yes antibioticsYes 1.09 0.322 6.2e-05 0.00207 abundance 1530 843 0.000124 0.000852
Bacteroides_uniformis reads reads reads 0.552 0.138 6.21e-05 0.000483 prevalence 1530 1240 0.000124 0.000852
Bifidobacterium_longum antibiotics Yes antibioticsYes -0.221 0.328 0.5 0.716 prevalence 1530 843 0.000124 0.000852
Proteus_mirabilis antibiotics Yes antibioticsYes 2.63 0.679 7.49e-05 0.00232 abundance 1530 100 0.00015 0.00102
Proteus_mirabilis antibiotics Yes antibioticsYes -0.318 0.575 0.58 0.791 prevalence 1530 100 0.00015 0.00102
Eubacterium_ventriosum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.13 1.07 0.683 1 abundance 1530 520 0.000159 0.00107
Fusicatenibacter_saccharivorans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.00868 0.537 1 1 abundance 1530 1120 0.000158 0.00107
Eubacterium_ventriosum dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -4.05 1.03 7.93e-05 0.000608 prevalence 1530 520 0.000159 0.00107
Fusicatenibacter_saccharivorans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.83 0.716 7.9e-05 0.000608 prevalence 1530 1120 0.000158 0.00107
Bacteroides_stercoris dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.529 0.643 0.67 1 abundance 1530 826 0.00019 0.00126
Dysosmobacter_sp_BX15 reads reads reads -0.0751 0.0836 1 1 abundance 1530 621 0.000191 0.00126
Roseburia_sp_AF02_12 diagnosis CD diagnosisCD 0.842 0.594 0.236 0.657 abundance 1530 363 0.000192 0.00126
Bacteroides_stercoris dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -4.71 1.21 9.52e-05 0.000713 prevalence 1530 826 0.00019 0.00126
Dysosmobacter_sp_BX15 reads reads reads 0.46 0.118 9.53e-05 0.000713 prevalence 1530 621 0.000191 0.00126
Roseburia_sp_AF02_12 diagnosis CD diagnosisCD -2.94 0.753 9.58e-05 0.000713 prevalence 1530 363 0.000192 0.00126
Roseburia_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.812 0.43 1 1 abundance 1530 922 0.000197 0.00129
Roseburia_faecis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.57 0.402 9.85e-05 0.000728 prevalence 1530 922 0.000197 0.00129
Alistipes_communis reads reads reads 0.163 0.096 0.000279 0.00685 abundance 1530 407 0.000201 0.00131
Alistipes_communis reads reads reads 0.519 0.133 0.000101 0.000738 prevalence 1530 407 0.000201 0.00131
Lachnospira_pectinoschiza antibiotics Yes antibioticsYes -1.94 0.445 0.000109 0.00316 abundance 1530 500 0.000218 0.00141
Lachnospira_pectinoschiza antibiotics Yes antibioticsYes -1.21 0.347 0.000495 0.00298 prevalence 1530 500 0.000218 0.00141
Faecalibacterium_SGB15315 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.41 1.04 0.494 0.931 abundance 1530 619 0.000223 0.00143
Faecalibacterium_SGB15315 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.19 0.825 0.000111 0.000811 prevalence 1530 619 0.000223 0.00143
Clostridium_sp_AF20_17LB dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.49 0.775 0.127 0.474 abundance 1530 654 0.000237 0.00151
Clostridium_sp_AF20_17LB dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.3 0.598 0.000118 0.000856 prevalence 1530 654 0.000237 0.00151
Haemophilus_parainfluenzae reads reads reads -0.49 0.106 0.00463 0.0661 abundance 1530 674 0.000249 0.00158
Haemophilus_parainfluenzae reads reads reads 0.288 0.075 0.000125 0.000897 prevalence 1530 674 0.000249 0.00158
Dorea_longicatena dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.489 0.472 1 1 abundance 1530 1020 0.000256 0.00161
Dorea_longicatena dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.15 0.823 0.000128 0.000913 prevalence 1530 1020 0.000256 0.00161
Anaerostipes_hadrus reads reads reads -0.386 0.0685 1 1 abundance 1530 1130 0.000282 0.00177
Anaerostipes_hadrus reads reads reads 0.348 0.0914 0.000141 0.000999 prevalence 1530 1130 0.000282 0.00177
Coprococcus_comes dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.69 0.911 0.0077 0.0936 abundance 1530 759 0.000284 0.00177
Coprococcus_comes dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.42 0.9 0.000142 0.001 prevalence 1530 759 0.000284 0.00177
Bacteroides_thetaiotaomicron dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.0247 0.469 1 1 abundance 1530 1060 0.00032 0.00198
Bacteroides_thetaiotaomicron dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.61 0.691 0.00016 0.00112 prevalence 1530 1060 0.00032 0.00198
Alistipes_shahii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.669 1.12 0.409 0.866 abundance 1530 673 0.000336 0.00206
Alistipes_shahii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -4.34 1.15 0.000168 0.00117 prevalence 1530 673 0.000336 0.00206
Waltera_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.03 0.949 0.725 1 abundance 1530 524 0.000342 0.00209
Waltera_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.04 0.542 0.000171 0.00118 prevalence 1530 524 0.000342 0.00209
Dialister_invisus antibiotics Yes antibioticsYes -0.832 0.387 0.108 0.441 abundance 1530 726 0.000351 0.00214
Dialister_invisus antibiotics Yes antibioticsYes -1.49 0.396 0.000176 0.00121 prevalence 1530 726 0.000351 0.00214
Enterocloster_clostridioformis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.28 0.52 0.000181 0.00508 abundance 1530 312 0.000361 0.00218
Enterocloster_clostridioformis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.0922 0.445 0.836 0.964 prevalence 1530 312 0.000361 0.00218
GGB9480_SGB14874 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.416 1 0.782 1 abundance 1530 332 0.000371 0.00223
GGB9480_SGB14874 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.87 1.03 0.000185 0.00126 prevalence 1530 332 0.000371 0.00223
Firmicutes_bacterium_AF16_15 diagnosis UC diagnosisUC -0.726 0.509 0.0777 0.375 abundance 1530 827 0.00038 0.00227
Firmicutes_bacterium_AF16_15 diagnosis UC diagnosisUC -2.95 0.792 0.00019 0.00129 prevalence 1530 827 0.00038 0.00227
Parabacteroides_distasonis reads reads reads -0.0156 0.0429 1 1 abundance 1530 1140 0.000394 0.00234
Parabacteroides_distasonis reads reads reads 0.5 0.134 0.000197 0.00133 prevalence 1530 1140 0.000394 0.00234
Faecalibacterium_SGB15315 antibiotics Yes antibioticsYes -1.85 0.438 0.000204 0.00555 abundance 1530 619 0.000407 0.0024
Faecalibacterium_SGB15315 antibiotics Yes antibioticsYes -0.505 0.379 0.182 0.349 prevalence 1530 619 0.000407 0.0024
Phocaeicola_vulgatus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.07 0.364 0.0251 0.196 abundance 1530 1290 0.000451 0.00265
Phocaeicola_vulgatus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.25 0.611 0.000226 0.00151 prevalence 1530 1290 0.000451 0.00265
Bacteroides_caccae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.719 0.354 1 1 abundance 1530 958 0.000486 0.00282
Bifidobacterium_longum age age age -0.372 0.211 0.18 0.57 abundance 1530 843 0.000488 0.00282
Klebsiella_pneumoniae antibiotics Yes antibioticsYes 2.32 0.667 0.000244 0.00629 abundance 1530 119 0.000489 0.00282
Bacteroides_caccae dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.18 0.593 0.000243 0.00161 prevalence 1530 958 0.000486 0.00282
Bifidobacterium_longum age age age -1.02 0.277 0.000244 0.00161 prevalence 1530 843 0.000488 0.00282
Klebsiella_pneumoniae antibiotics Yes antibioticsYes 0.787 0.32 0.0139 0.0476 prevalence 1530 119 0.000489 0.00282
Bacteroides_fragilis reads reads reads -0.147 0.0775 1 1 abundance 1530 787 0.000494 0.00283
Bacteroides_fragilis reads reads reads 0.37 0.101 0.000247 0.00162 prevalence 1530 787 0.000494 0.00283
Clostridium_sp_AM49_4BH diagnosis UC diagnosisUC 0.0706 0.57 1 1 abundance 1530 344 0.00052 0.00297
Clostridium_sp_AM49_4BH diagnosis UC diagnosisUC -3.26 0.893 0.00026 0.0017 prevalence 1530 344 0.00052 0.00297
Alistipes_onderdonkii reads reads reads -0.0565 0.0764 1 1 abundance 1530 831 0.000528 0.003
Alistipes_onderdonkii reads reads reads 0.413 0.113 0.000264 0.00171 prevalence 1530 831 0.000528 0.003
Alistipes_dispar dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 3.1 0.994 0.000282 0.00685 abundance 1530 83 0.000563 0.00314
Gemmiger_formicilis reads reads reads -0.44 0.112 1 1 abundance 1530 472 0.000564 0.00314
Parasutterella_excrementihominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.3 0.6 0.315 0.795 abundance 1530 699 0.000562 0.00314
Alistipes_dispar dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.117 1.07 0.913 0.99 prevalence 1530 83 0.000563 0.00314
Gemmiger_formicilis reads reads reads 0.393 0.108 0.000282 0.00181 prevalence 1530 472 0.000564 0.00314
Parasutterella_excrementihominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3 0.827 0.000281 0.00181 prevalence 1530 699 0.000562 0.00314
Bacteroides_stercoris dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.12 0.413 0.00058 0.0127 abundance 1530 826 0.000605 0.00335
Bacteroides_stercoris dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.03 0.562 0.000302 0.00192 prevalence 1530 826 0.000605 0.00335
Lachnospira_eligens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.723 0.616 0.447 0.899 abundance 1530 929 0.000688 0.00379
Lachnospira_eligens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.25 0.628 0.000344 0.00218 prevalence 1530 929 0.000688 0.00379
Bacteroides_thetaiotaomicron antibiotics Yes antibioticsYes 0.582 0.222 0.000376 0.00891 abundance 1530 1060 0.000752 0.00413
Bacteroides_thetaiotaomicron antibiotics Yes antibioticsYes -0.0442 0.438 0.92 0.99 prevalence 1530 1060 0.000752 0.00413
Oscillibacter_sp_ER4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.5 0.805 0.0252 0.196 abundance 1530 458 0.000772 0.00421
Oscillibacter_sp_ER4 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.94 0.828 0.000386 0.00243 prevalence 1530 458 0.000772 0.00421
Lacrimispora_amygdalina dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.695 0.527 0.404 0.864 abundance 1530 865 0.000786 0.00427
Lacrimispora_amygdalina dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.27 0.64 0.000393 0.00244 prevalence 1530 865 0.000786 0.00427
Bacteroides_ovatus antibiotics Yes antibioticsYes 0.455 0.187 0.000399 0.0092 abundance 1530 1180 0.000798 0.00431
Bacteroides_ovatus antibiotics Yes antibioticsYes 0.725 0.513 0.157 0.319 prevalence 1530 1180 0.000798 0.00431
Clostridiaceae_bacterium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.174 0.571 1 1 abundance 1530 1110 0.000821 0.00441
Clostridiaceae_bacterium dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.05 0.581 0.00041 0.00254 prevalence 1530 1110 0.000821 0.00441
Lacrimispora_amygdalina age age age -0.348 0.193 1 1 abundance 1530 865 0.000855 0.00454
Veillonella_parvula age age age -0.0457 0.295 1 1 abundance 1530 547 0.000853 0.00454
Lacrimispora_amygdalina age age age -1.1 0.312 0.000428 0.00261 prevalence 1530 865 0.000855 0.00454
Veillonella_parvula age age age -0.87 0.247 0.000427 0.00261 prevalence 1530 547 0.000853 0.00454
Odoribacter_splanchnicus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.11 1.02 0.179 0.57 abundance 1530 757 0.000898 0.00475
Odoribacter_splanchnicus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -4.25 1.21 0.000449 0.00273 prevalence 1530 757 0.000898 0.00475
Clostridium_symbiosum age age age -0.55 0.234 0.0509 0.307 abundance 1530 539 0.000917 0.00482
Clostridium_symbiosum age age age -0.874 0.25 0.000459 0.00277 prevalence 1530 539 0.000917 0.00482
Collinsella_aerofaciens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3 0.979 0.00522 0.0715 abundance 1530 698 0.00101 0.00529
Collinsella_aerofaciens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.53 1.02 0.000506 0.00302 prevalence 1530 698 0.00101 0.00529
Bacteroides_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 2.59 0.814 0.000525 0.0118 abundance 1530 434 0.00105 0.00547
Bacteroides_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.7 1.16 0.144 0.297 prevalence 1530 434 0.00105 0.00547
Akkermansia_muciniphila reads reads reads -0.384 0.142 1 1 abundance 1530 407 0.00109 0.00563
Akkermansia_muciniphila reads reads reads 0.333 0.0961 0.000544 0.00323 prevalence 1530 407 0.00109 0.00563
Dialister_invisus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.414 0.371 0.45 0.899 abundance 1530 726 0.0011 0.00569
Dialister_invisus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.9 0.55 0.000552 0.00326 prevalence 1530 726 0.0011 0.00569
Alistipes_putredinis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.06 0.411 0.381 0.847 abundance 1530 873 0.00126 0.00647
Alistipes_putredinis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.75 0.513 0.000631 0.00371 prevalence 1530 873 0.00126 0.00647
Bacteroides_cellulosilyticus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.746 0.711 1 1 abundance 1530 433 0.00132 0.00671
Bacteroides_cellulosilyticus dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.91 0.855 0.000658 0.00384 prevalence 1530 433 0.00132 0.00671
Veillonella_rogosae reads reads reads -0.897 0.205 0.00068 0.0142 abundance 1530 207 0.00136 0.0069
Veillonella_rogosae reads reads reads 0.232 0.114 0.0409 0.111 prevalence 1530 207 0.00136 0.0069
Roseburia_inulinivorans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.153 0.653 0.533 0.963 abundance 1530 951 0.00137 0.00694
Roseburia_inulinivorans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.84 0.543 0.000687 0.00397 prevalence 1530 951 0.00137 0.00694
Bacteroides_cellulosilyticus age age age 0.16 0.427 1 1 abundance 1530 433 0.00164 0.00825
Bacteroides_cellulosilyticus age age age 2.13 0.636 0.000822 0.00472 prevalence 1530 433 0.00164 0.00825
Veillonella_dispar age age age -0.306 0.289 1 1 abundance 1530 526 0.00168 0.00838
Veillonella_dispar age age age -1.02 0.306 0.000839 0.00479 prevalence 1530 526 0.00168 0.00838
Firmicutes_bacterium_AF16_15 diagnosis CD diagnosisCD -0.0442 0.455 1 1 abundance 1530 827 0.0017 0.00847
Firmicutes_bacterium_AF16_15 diagnosis CD diagnosisCD -2.46 0.738 0.000852 0.00484 prevalence 1530 827 0.0017 0.00847
Eisenbergiella_massiliensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.95 0.802 0.00105 0.021 abundance 1530 417 0.00172 0.0085
Eisenbergiella_massiliensis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.04 0.613 0.000858 0.00485 prevalence 1530 417 0.00172 0.0085
Clostridium_fessum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.71 0.704 0.517 0.945 abundance 1530 926 0.00173 0.00853
Clostridium_fessum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.53 1.06 0.000866 0.00487 prevalence 1530 926 0.00173 0.00853
Bilophila_wadsworthia dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.633 1.82 0.835 1 abundance 1530 764 0.00178 0.00866
Gemmiger_formicilis diagnosis UC diagnosisUC 0.311 0.713 1 1 abundance 1530 472 0.00178 0.00866
Ruminococcus_torques dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.0835 0.585 1 1 abundance 1530 1090 0.00177 0.00866
Bilophila_wadsworthia dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -4.45 1.34 0.000889 0.00494 prevalence 1530 764 0.00178 0.00866
Gemmiger_formicilis diagnosis UC diagnosisUC -3.64 1.1 0.000892 0.00494 prevalence 1530 472 0.00178 0.00866
Ruminococcus_torques dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.15 0.648 0.000887 0.00494 prevalence 1530 1090 0.00177 0.00866
Ruminococcus_bromii antibiotics Yes antibioticsYes 0.0674 0.368 0.453 0.899 abundance 1530 429 0.00182 0.00881
Ruminococcus_bromii antibiotics Yes antibioticsYes -1.31 0.394 0.000912 0.00502 prevalence 1530 429 0.00182 0.00881
Eisenbergiella_massiliensis reads reads reads -0.412 0.128 1 1 abundance 1530 417 0.00196 0.00941
Eisenbergiella_massiliensis reads reads reads 0.321 0.0972 0.000979 0.00536 prevalence 1530 417 0.00196 0.00941
Alistipes_finegoldii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.902 0.682 1 1 abundance 1530 639 0.00204 0.00978
Alistipes_finegoldii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.24 0.682 0.00102 0.00557 prevalence 1530 639 0.00204 0.00978
Roseburia_intestinalis reads reads reads -0.189 0.0984 1 1 abundance 1530 842 0.00208 0.00992
Roseburia_intestinalis reads reads reads 0.255 0.0779 0.00104 0.00564 prevalence 1530 842 0.00208 0.00992
Ruminococcus_lactaris dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.543 1.22 0.311 0.79 abundance 1530 379 0.00224 0.0106
Ruminococcus_lactaris dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.03 0.929 0.00112 0.00603 prevalence 1530 379 0.00224 0.0106
Clostridium_sp_AF20_17LB diagnosis UC diagnosisUC 2.36 0.642 0.00115 0.0221 abundance 1530 654 0.0023 0.0109
Clostridium_sp_AF20_17LB diagnosis UC diagnosisUC 2.01 0.915 0.028 0.0819 prevalence 1530 654 0.0023 0.0109
Blautia_obeum antibiotics Yes antibioticsYes -0.245 0.322 1 1 abundance 1530 899 0.00241 0.0113
Blautia_obeum antibiotics Yes antibioticsYes -1.04 0.321 0.0012 0.00643 prevalence 1530 899 0.00241 0.0113
Phascolarctobacterium_faecium reads reads reads -0.0226 0.0775 1 1 abundance 1530 503 0.00249 0.0116
Phascolarctobacterium_faecium reads reads reads 0.416 0.129 0.00124 0.00661 prevalence 1530 503 0.00249 0.0116
Parabacteroides_merdae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.09 0.598 0.00227 0.0378 abundance 1530 826 0.00253 0.0118
Parabacteroides_merdae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.88 0.894 0.00127 0.0067 prevalence 1530 826 0.00253 0.0118
Clostridium_sp_AF36_4 antibiotics Yes antibioticsYes -0.937 0.399 0.0688 0.352 abundance 1530 568 0.0026 0.0121
Clostridium_sp_AF36_4 antibiotics Yes antibioticsYes -1.29 0.401 0.0013 0.00684 prevalence 1530 568 0.0026 0.0121
Roseburia_sp_AF02_12 diagnosis UC diagnosisUC 1.14 0.66 0.153 0.523 abundance 1530 363 0.00269 0.0124
Vescimonas_coprocola dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.682 1.66 1 1 abundance 1530 599 0.0027 0.0124
Roseburia_sp_AF02_12 diagnosis UC diagnosisUC -2.56 0.799 0.00134 0.00703 prevalence 1530 363 0.00269 0.0124
Vescimonas_coprocola dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.94 0.916 0.00135 0.00703 prevalence 1530 599 0.0027 0.0124
Alistipes_putredinis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.64 0.766 0.0702 0.353 abundance 1530 873 0.00272 0.0124
Alistipes_putredinis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.19 0.997 0.00136 0.00705 prevalence 1530 873 0.00272 0.0124
Enterocloster_clostridioformis antibiotics Yes antibioticsYes 1.65 0.574 0.00137 0.0257 abundance 1530 312 0.00273 0.0124
Enterocloster_clostridioformis antibiotics Yes antibioticsYes 0.101 0.357 0.778 0.922 prevalence 1530 312 0.00273 0.0124
Hungatella_hathewayi antibiotics Yes antibioticsYes 1.3 0.471 0.00142 0.0261 abundance 1530 451 0.00284 0.0129
Hungatella_hathewayi antibiotics Yes antibioticsYes -0.329 0.266 0.215 0.395 prevalence 1530 451 0.00284 0.0129
Lacrimispora_amygdalina dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.614 0.424 0.00209 0.0362 abundance 1530 865 0.00298 0.0135
Lacrimispora_amygdalina dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.42 0.448 0.00149 0.00766 prevalence 1530 865 0.00298 0.0135
Bacteroides_finegoldii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.47 0.76 0.308 0.79 abundance 1530 333 0.00306 0.0137
Bacteroides_finegoldii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.73 0.862 0.00153 0.00782 prevalence 1530 333 0.00306 0.0137
Eubacterium_ventriosum reads reads reads -0.329 0.101 1 1 abundance 1530 520 0.00309 0.0138
Eubacterium_ventriosum reads reads reads 0.355 0.112 0.00155 0.00787 prevalence 1530 520 0.00309 0.0138
GGB16040_SGB9347 age age age -0.952 0.655 0.208 0.617 abundance 1530 114 0.00317 0.0141
GGB16040_SGB9347 age age age 2.12 0.67 0.00159 0.00803 prevalence 1530 114 0.00317 0.0141
GGB16040_SGB9347 reads reads reads -0.139 0.231 1 1 abundance 1530 114 0.00329 0.0146
GGB16040_SGB9347 reads reads reads 0.587 0.186 0.00165 0.00829 prevalence 1530 114 0.00329 0.0146
Faecalibacterium_prausnitzii age age age -0.561 0.148 0.0017 0.0306 abundance 1530 1370 0.0034 0.015
Faecalibacterium_prausnitzii age age age -0.798 0.374 0.0327 0.0935 prevalence 1530 1370 0.0034 0.015
Eubacterium_siraeum reads reads reads -0.373 0.121 1 1 abundance 1530 565 0.00346 0.0152
Eubacterium_siraeum reads reads reads 0.321 0.102 0.00173 0.00866 prevalence 1530 565 0.00346 0.0152
Clostridium_sp_AF34_10BH dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.392 0.686 0.346 0.811 abundance 1530 960 0.00359 0.0157
Clostridium_sp_AF34_10BH dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.47 0.472 0.00179 0.00895 prevalence 1530 960 0.00359 0.0157
Candidatus_Cibionibacter_quicibialis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.1 0.646 0.191 0.588 abundance 1530 933 0.00366 0.0159
Candidatus_Cibionibacter_quicibialis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.7 0.547 0.00183 0.00909 prevalence 1530 933 0.00366 0.0159
Clostridium_symbiosum diagnosis UC diagnosisUC 0.149 0.614 1 1 abundance 1530 539 0.00368 0.016
Clostridium_symbiosum diagnosis UC diagnosisUC 2.05 0.659 0.00184 0.00911 prevalence 1530 539 0.00368 0.016
Bacteroides_uniformis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.26 0.35 0.00418 0.0616 abundance 1530 1240 0.00375 0.0162
Bacteroides_uniformis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.93 0.943 0.00188 0.00922 prevalence 1530 1240 0.00375 0.0162
Lacrimispora_celerecrescens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.0477 0.606 0.618 1 abundance 1530 756 0.00389 0.0167
Lacrimispora_celerecrescens dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.74 0.56 0.00195 0.00952 prevalence 1530 756 0.00389 0.0167
Odoribacter_splanchnicus reads reads reads -0.171 0.0618 1 1 abundance 1530 757 0.00391 0.0167
Odoribacter_splanchnicus reads reads reads 0.413 0.133 0.00195 0.00952 prevalence 1530 757 0.00391 0.0167
Waltera_intestinalis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.82 1.77 0.147 0.515 abundance 1530 524 0.00408 0.0174
Waltera_intestinalis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.39 1.1 0.00204 0.0099 prevalence 1530 524 0.00408 0.0174
GGB9480_SGB14874 reads reads reads -0.283 0.114 1 1 abundance 1530 332 0.0042 0.0178
GGB9480_SGB14874 reads reads reads 0.347 0.113 0.0021 0.0101 prevalence 1530 332 0.0042 0.0178
Akkermansia_muciniphila dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.32 0.659 0.344 0.811 abundance 1530 407 0.00428 0.018
Akkermansia_muciniphila dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.37 0.446 0.00214 0.0103 prevalence 1530 407 0.00428 0.018
GGB58485_SGB80143 age age age 0.176 0.0615 0.00427 0.0184 prevalence 1530 14 0.00427 0.018
Oscillospiraceae_bacterium diagnosis UC diagnosisUC -3.38 0.938 0.00224 0.0378 abundance 1530 81 0.00447 0.0187
Oscillospiraceae_bacterium diagnosis UC diagnosisUC -0.322 1.37 0.814 0.948 prevalence 1530 81 0.00447 0.0187
Firmicutes_bacterium_AF16_15 age age age -0.685 0.196 0.00292 0.0462 abundance 1530 827 0.00451 0.0188
Firmicutes_bacterium_AF16_15 age age age -0.859 0.281 0.00226 0.0108 prevalence 1530 827 0.00451 0.0188
Clostridium_sp_1001270H_150608_G6 diagnosis UC diagnosisUC -3.23 1.5 0.0352 0.242 abundance 1530 141 0.00465 0.0193
Clostridium_sp_1001270H_150608_G6 diagnosis UC diagnosisUC -4.42 1.45 0.00233 0.0111 prevalence 1530 141 0.00465 0.0193
GGB4237_SGB5728 reads reads reads 0.774 0.274 0.00467 0.0198 prevalence 1530 6 0.00467 0.0193
GGB3278_SGB4328 antibiotics Yes antibioticsYes 1.08 1.65 0.436 0.893 abundance 1530 179 0.00473 0.0195
GGB3278_SGB4328 antibiotics Yes antibioticsYes -2.41 0.794 0.00237 0.0112 prevalence 1530 179 0.00473 0.0195
Collinsella_SGB14861 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.805 1.09 0.613 1 abundance 1530 593 0.00478 0.0196
Collinsella_SGB14861 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.49 0.822 0.00239 0.0113 prevalence 1530 593 0.00478 0.0196
Bacteroides_eggerthii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.204 1.39 0.725 1 abundance 1530 409 0.00485 0.0198
Bacteroides_eggerthii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.77 0.913 0.00243 0.0114 prevalence 1530 409 0.00485 0.0198
Enterocloster_bolteae diagnosis CD diagnosisCD 1.23 0.577 0.0582 0.32 abundance 1530 866 0.00498 0.0202
Parasutterella_excrementihominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.5 0.641 0.00645 0.0842 abundance 1530 699 0.00498 0.0202
Enterocloster_bolteae diagnosis CD diagnosisCD 1.83 0.606 0.00249 0.0116 prevalence 1530 866 0.00498 0.0202
GGB33512_SGB15201 age age age 1.64 0.582 0.00497 0.0209 prevalence 1530 121 0.00497 0.0202
Parasutterella_excrementihominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.34 0.773 0.0025 0.0116 prevalence 1530 699 0.00498 0.0202
Dialister_invisus age age age 0.0133 0.255 1 1 abundance 1530 726 0.00508 0.0204
Dialister_invisus age age age -1.5 0.498 0.00254 0.0118 prevalence 1530 726 0.00508 0.0204
Phascolarctobacterium_faecium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.08 0.592 0.519 0.945 abundance 1530 503 0.00542 0.0217
Phascolarctobacterium_faecium dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.83 0.61 0.00271 0.0125 prevalence 1530 503 0.00542 0.0217
Barnesiella_intestinihominis reads reads reads 0.0766 0.0917 1 1 abundance 1530 431 0.00555 0.0222
Barnesiella_intestinihominis reads reads reads 0.443 0.148 0.00278 0.0128 prevalence 1530 431 0.00555 0.0222
Lachnospira_sp_NSJ_43 antibiotics Yes antibioticsYes -0.00306 0.578 1 1 abundance 1530 296 0.00565 0.0225
Lachnospira_sp_NSJ_43 antibiotics Yes antibioticsYes -1.95 0.653 0.00283 0.013 prevalence 1530 296 0.00565 0.0225
Veillonella_rogosae antibiotics Yes antibioticsYes 2.39 0.86 0.00286 0.0462 abundance 1530 207 0.00571 0.0227
Veillonella_rogosae antibiotics Yes antibioticsYes -0.973 0.536 0.0696 0.168 prevalence 1530 207 0.00571 0.0227
Enterocloster_clostridioformis age age age 0.89 0.306 0.00293 0.0462 abundance 1530 312 0.00585 0.0231
Enterocloster_clostridioformis age age age 0.557 0.371 0.133 0.281 prevalence 1530 312 0.00585 0.0231
Blautia_obeum diagnosis UC diagnosisUC 1.55 0.448 0.00298 0.0463 abundance 1530 899 0.00596 0.0234
Blautia_obeum diagnosis UC diagnosisUC 0.896 0.686 0.191 0.36 prevalence 1530 899 0.00596 0.0234
Alistipes_onderdonkii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.67 0.517 0.0593 0.32 abundance 1530 831 0.00605 0.0237
Alistipes_onderdonkii dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.45 0.49 0.00303 0.0138 prevalence 1530 831 0.00605 0.0237
Clostridium_sp_AF36_4 reads reads reads -0.0522 0.0952 1 1 abundance 1530 568 0.00616 0.024
Clostridium_sp_AF36_4 reads reads reads 0.302 0.102 0.00308 0.014 prevalence 1530 568 0.00616 0.024
Lacrimispora_celerecrescens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.934 0.623 0.00911 0.104 abundance 1530 756 0.00624 0.0243
Lacrimispora_celerecrescens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.41 0.478 0.00312 0.0141 prevalence 1530 756 0.00624 0.0243
Clostridium_sp_AT4 diagnosis UC diagnosisUC 0.78 0.689 0.39 0.852 abundance 1530 528 0.00628 0.0243
Clostridium_sp_AT4 diagnosis UC diagnosisUC 2.74 0.928 0.00315 0.0141 prevalence 1530 528 0.00628 0.0243
Roseburia_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.478 0.46 0.011 0.115 abundance 1530 842 0.00635 0.0245
Roseburia_intestinalis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.06 0.359 0.00318 0.0142 prevalence 1530 842 0.00635 0.0245
Oscillibacter_sp_ER4 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.18 1.28 0.0225 0.183 abundance 1530 458 0.00641 0.0246
Oscillibacter_sp_ER4 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.79 1.29 0.00321 0.0143 prevalence 1530 458 0.00641 0.0246
Faecalibacterium_prausnitzii antibiotics Yes antibioticsYes -0.25 0.157 1 1 abundance 1530 1370 0.00661 0.0253
Faecalibacterium_prausnitzii antibiotics Yes antibioticsYes -1.45 0.494 0.00331 0.0147 prevalence 1530 1370 0.00661 0.0253
Alistipes_putredinis diagnosis UC diagnosisUC -2.01 0.775 0.00582 0.0782 abundance 1530 873 0.00711 0.0271
GGB9453_SGB14844 age age age 0.162 0.372 0.509 0.942 abundance 1530 222 0.00713 0.0271
Alistipes_putredinis diagnosis UC diagnosisUC -3.96 1.36 0.00356 0.0157 prevalence 1530 873 0.00711 0.0271
GGB9453_SGB14844 age age age 1.55 0.531 0.00357 0.0157 prevalence 1530 222 0.00713 0.0271
Ruminococcus_bicirculans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.0592 0.545 0.167 0.548 abundance 1530 678 0.00718 0.0272
Ruminococcus_bicirculans dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.46 0.503 0.0036 0.0158 prevalence 1530 678 0.00718 0.0272
Veillonella_dispar reads reads reads -0.518 0.122 0.00715 0.0894 abundance 1530 526 0.00752 0.0284
Veillonella_dispar reads reads reads 0.262 0.0906 0.00377 0.0164 prevalence 1530 526 0.00752 0.0284
Tyzzerella_nexilis antibiotics Yes antibioticsYes 1.84 0.8 0.0114 0.118 abundance 1530 188 0.00763 0.0287
Tyzzerella_nexilis antibiotics Yes antibioticsYes -1.67 0.576 0.00382 0.0166 prevalence 1530 188 0.00763 0.0287
Roseburia_intestinalis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.132 0.562 1 1 abundance 1530 842 0.00904 0.0339
Roseburia_intestinalis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.62 0.571 0.00453 0.0195 prevalence 1530 842 0.00904 0.0339
Eubacterium_siraeum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.29 1.4 0.0305 0.223 abundance 1530 565 0.00916 0.0342
Eubacterium_siraeum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.56 0.904 0.00459 0.0197 prevalence 1530 565 0.00916 0.0342
Clostridium_sp_AF34_10BH diagnosis UC diagnosisUC -0.335 0.498 0.301 0.776 abundance 1530 960 0.00921 0.0342
Clostridium_sp_AF34_10BH diagnosis UC diagnosisUC -1.89 0.666 0.00461 0.0197 prevalence 1530 960 0.00921 0.0342
Collinsella_SGB14861 reads reads reads -0.349 0.105 1 1 abundance 1530 593 0.00935 0.0346
Collinsella_SGB14861 reads reads reads 0.283 0.1 0.00468 0.0198 prevalence 1530 593 0.00935 0.0346
Blautia_wexlerae antibiotics Yes antibioticsYes 0.242 0.238 0.0581 0.32 abundance 1530 1300 0.0101 0.0372
Blautia_wexlerae antibiotics Yes antibioticsYes -0.83 0.296 0.00506 0.0212 prevalence 1530 1300 0.0101 0.0372
Alistipes_onderdonkii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.03 1.91 0.686 1 abundance 1530 831 0.0102 0.0374
Alistipes_onderdonkii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -5.33 1.9 0.00509 0.0213 prevalence 1530 831 0.0102 0.0374
Lachnospira_sp_NSJ_43 reads reads reads -0.573 0.136 0.00513 0.0715 abundance 1530 296 0.0102 0.0374
Vescimonas_coprocola dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.843 1.19 0.623 1 abundance 1530 599 0.0102 0.0374
Lachnospira_sp_NSJ_43 reads reads reads 0.205 0.135 0.128 0.274 prevalence 1530 296 0.0102 0.0374
Vescimonas_coprocola dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.82 1.01 0.00514 0.0214 prevalence 1530 599 0.0102 0.0374
Eubacterium_ventriosum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.81 0.851 0.514 0.945 abundance 1530 520 0.0106 0.0385
Eubacterium_ventriosum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.87 0.67 0.00531 0.022 prevalence 1530 520 0.0106 0.0385
Clostridium_sp_AM22_11AC dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.75 0.656 0.126 0.473 abundance 1530 730 0.0106 0.0385
Clostridium_sp_AM22_11AC dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.65 0.591 0.00533 0.022 prevalence 1530 730 0.0106 0.0385
Phocaeicola_dorei dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.0663 0.628 0.226 0.648 abundance 1530 769 0.0107 0.0387
Phocaeicola_dorei dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.27 0.455 0.00537 0.022 prevalence 1530 769 0.0107 0.0387
GGB9480_SGB14874 antibiotics Yes antibioticsYes -0.373 0.469 1 1 abundance 1530 332 0.0111 0.0398
GGB9480_SGB14874 antibiotics Yes antibioticsYes -1.15 0.416 0.00554 0.0226 prevalence 1530 332 0.0111 0.0398
Alistipes_shahii diagnosis UC diagnosisUC -0.715 0.577 0.126 0.473 abundance 1530 673 0.0111 0.0398
Alistipes_shahii diagnosis UC diagnosisUC -4.26 1.54 0.00557 0.0226 prevalence 1530 673 0.0111 0.0398
GGB51647_SGB4348 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.18 1.66 0.372 0.84 abundance 1530 123 0.0114 0.0409
GGB51647_SGB4348 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.17 1.15 0.00574 0.0232 prevalence 1530 123 0.0114 0.0409
Eubacterium_rectale reads reads reads -0.143 0.0608 1 1 abundance 1530 1210 0.012 0.0429
Eubacterium_rectale reads reads reads 0.32 0.117 0.00604 0.0243 prevalence 1530 1210 0.012 0.0429
Bifidobacterium_adolescentis diagnosis CD diagnosisCD -0.407 0.658 0.42 0.876 abundance 1530 427 0.0122 0.0432
Blautia_faecis antibiotics Yes antibioticsYes -0.221 0.252 1 1 abundance 1530 1120 0.0122 0.0432
Bifidobacterium_adolescentis diagnosis CD diagnosisCD -2.5 0.913 0.00613 0.0245 prevalence 1530 427 0.0122 0.0432
Blautia_faecis antibiotics Yes antibioticsYes -0.844 0.308 0.00611 0.0245 prevalence 1530 1120 0.0122 0.0432
Barnesiella_intestinihominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.39 1.1 0.0518 0.309 abundance 1530 431 0.0123 0.0434
Barnesiella_intestinihominis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.68 1.34 0.00618 0.0245 prevalence 1530 431 0.0123 0.0434
Escherichia_coli dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.3 0.568 0.00636 0.0842 abundance 1530 707 0.0127 0.0446
Escherichia_coli dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.798 0.438 0.0684 0.166 prevalence 1530 707 0.0127 0.0446
Roseburia_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.838 0.759 0.442 0.899 abundance 1530 922 0.0131 0.046
Roseburia_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.52 0.559 0.00659 0.0259 prevalence 1530 922 0.0131 0.046
Bifidobacterium_adolescentis antibiotics Yes antibioticsYes -1.87 0.611 0.00686 0.0882 abundance 1530 427 0.0137 0.0477
Bifidobacterium_adolescentis antibiotics Yes antibioticsYes -0.668 0.408 0.101 0.227 prevalence 1530 427 0.0137 0.0477
Lachnospira_pectinoschiza reads reads reads -0.351 0.104 1 1 abundance 1530 500 0.0139 0.0482
Lachnospira_pectinoschiza reads reads reads 0.263 0.0973 0.00696 0.0272 prevalence 1530 500 0.0139 0.0482
Sutterella_wadsworthensis age age age -0.934 0.305 0.00708 0.0894 abundance 1530 536 0.0141 0.0489
Sutterella_wadsworthensis age age age -0.468 0.559 0.402 0.63 prevalence 1530 536 0.0141 0.0489
Clostridium_sp_AM49_4BH dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.819 1.85 0.414 0.869 abundance 1530 344 0.0145 0.0499
Veillonella_rogosae age age age -0.0876 0.378 1 1 abundance 1530 207 0.0145 0.0499
Clostridium_sp_AM49_4BH dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.43 0.906 0.00727 0.0282 prevalence 1530 344 0.0145 0.0499
Veillonella_rogosae age age age -0.92 0.343 0.00727 0.0282 prevalence 1530 207 0.0145 0.0499
Blautia_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.0785 0.427 1 1 abundance 1530 1120 0.0147 0.0503
Blautia_faecis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.41 0.527 0.00736 0.0284 prevalence 1530 1120 0.0147 0.0503
Bacteroides_fragilis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 1.02 0.475 0.0075 0.0924 abundance 1530 787 0.0149 0.0509
Ruminococcus_bicirculans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.851 0.607 0.0692 0.352 abundance 1530 678 0.0149 0.0509
Bacteroides_fragilis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.0451 0.523 0.931 0.99 prevalence 1530 787 0.0149 0.0509
Ruminococcus_bicirculans dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.51 0.564 0.00749 0.0288 prevalence 1530 678 0.0149 0.0509
Vescimonas_coprocola antibiotics Yes antibioticsYes -0.303 0.389 1 1 abundance 1530 599 0.0156 0.0528
Vescimonas_coprocola antibiotics Yes antibioticsYes -1.02 0.385 0.00781 0.0299 prevalence 1530 599 0.0156 0.0528
Clostridiaceae_bacterium antibiotics Yes antibioticsYes -0.204 0.246 1 1 abundance 1530 1110 0.0157 0.0531
Clostridiaceae_bacterium antibiotics Yes antibioticsYes -0.807 0.304 0.00787 0.03 prevalence 1530 1110 0.0157 0.0531
Waltera_intestinalis antibiotics Yes antibioticsYes -0.172 0.563 1 1 abundance 1530 524 0.0158 0.0533
Waltera_intestinalis antibiotics Yes antibioticsYes -0.923 0.348 0.00794 0.0302 prevalence 1530 524 0.0158 0.0533
Bacteroides_caecigallinarum reads reads reads 0.199 0.122 0.00808 0.097 abundance 1530 21 0.0161 0.0541
Bacteroides_caecigallinarum reads reads reads 0.63 0.416 0.13 0.276 prevalence 1530 21 0.0161 0.0541
Firmicutes_bacterium_AF16_15 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.03 0.855 0.364 0.83 abundance 1530 827 0.0168 0.0563
Firmicutes_bacterium_AF16_15 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.7 0.645 0.00843 0.0317 prevalence 1530 827 0.0168 0.0563
Barnesiella_intestinihominis diagnosis UC diagnosisUC -2.82 1.09 0.00858 0.101 abundance 1530 431 0.0171 0.0571
Barnesiella_intestinihominis diagnosis UC diagnosisUC -2.82 1.87 0.13 0.277 prevalence 1530 431 0.0171 0.0571
Lacrimispora_celerecrescens diagnosis UC diagnosisUC 1.36 0.435 0.00864 0.101 abundance 1530 756 0.0172 0.0572
Lacrimispora_celerecrescens diagnosis UC diagnosisUC -0.447 0.929 0.63 0.822 prevalence 1530 756 0.0172 0.0572
Fusicatenibacter_saccharivorans diagnosis UC diagnosisUC 0.198 0.453 1 1 abundance 1530 1120 0.0175 0.0579
Fusicatenibacter_saccharivorans diagnosis UC diagnosisUC -2.34 0.893 0.00877 0.0328 prevalence 1530 1120 0.0175 0.0579
Coprococcus_eutactus antibiotics Yes antibioticsYes -1.79 0.831 0.0587 0.32 abundance 1530 177 0.0178 0.0587
Lachnospira_sp_NSJ_43 diagnosis CD diagnosisCD -0.306 0.835 0.607 1 abundance 1530 296 0.0178 0.0587
Coprococcus_eutactus antibiotics Yes antibioticsYes -2.23 0.851 0.00895 0.0332 prevalence 1530 177 0.0178 0.0587
Lachnospira_sp_NSJ_43 diagnosis CD diagnosisCD -3.63 1.39 0.00894 0.0332 prevalence 1530 296 0.0178 0.0587
Anaerostipes_hadrus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.02 0.522 0.141 0.503 abundance 1530 1130 0.0183 0.0599
Dysosmobacter_sp_BX15 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.41 0.886 0.191 0.588 abundance 1530 621 0.0183 0.0599
Anaerostipes_hadrus dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.38 0.531 0.00919 0.0339 prevalence 1530 1130 0.0183 0.0599
Dysosmobacter_sp_BX15 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.19 0.841 0.00919 0.0339 prevalence 1530 621 0.0183 0.0599
Bacteroides_salyersiae reads reads reads -0.198 0.181 1 1 abundance 1530 150 0.0185 0.0605
Bacteroides_salyersiae reads reads reads 0.581 0.223 0.00932 0.0342 prevalence 1530 150 0.0185 0.0605
Clostridium_leptum antibiotics Yes antibioticsYes 0.584 0.386 0.0401 0.259 abundance 1530 652 0.0189 0.0612
Parasutterella_SGB9260 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -3.52 1.08 0.00945 0.106 abundance 1530 269 0.0188 0.0612
Clostridium_leptum antibiotics Yes antibioticsYes -0.848 0.327 0.00948 0.0347 prevalence 1530 652 0.0189 0.0612
Parasutterella_SGB9260 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.2 1.25 0.0792 0.186 prevalence 1530 269 0.0188 0.0612
Bacteroides_eggerthii diagnosis CD diagnosisCD -0.794 1.24 0.458 0.9 abundance 1530 409 0.0191 0.0617
Bacteroides_eggerthii diagnosis CD diagnosisCD -2.33 0.9 0.00959 0.035 prevalence 1530 409 0.0191 0.0617
Ruminococcus_bromii diagnosis UC diagnosisUC -0.547 0.803 0.368 0.833 abundance 1530 429 0.0193 0.0622
Ruminococcus_bromii diagnosis UC diagnosisUC -2.83 1.1 0.00971 0.0353 prevalence 1530 429 0.0193 0.0622
Alistipes_SGB2313 age age age 1.35 0.553 0.0199 0.169 abundance 1530 73 0.0199 0.0638
Barnesiella_intestinihominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.623 0.723 1 1 abundance 1530 431 0.02 0.0638
Klebsiella_pneumoniae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 3.66 1.49 0.01 0.111 abundance 1530 119 0.0199 0.0638
Barnesiella_intestinihominis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.3 0.894 0.01 0.0363 prevalence 1530 431 0.02 0.0638
Klebsiella_pneumoniae dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.978 0.663 0.14 0.291 prevalence 1530 119 0.0199 0.0638
Faecalibacterium_SGB15315 diagnosis CD diagnosisCD 1.1 0.814 0.237 0.659 abundance 1530 619 0.0204 0.0648
Faecalibacterium_SGB15315 diagnosis CD diagnosisCD -2.38 0.926 0.0102 0.0369 prevalence 1530 619 0.0204 0.0648
Lacrimispora_amygdalina antibiotics Yes antibioticsYes -0.0705 0.262 1 1 abundance 1530 865 0.0209 0.0662
Lacrimispora_amygdalina antibiotics Yes antibioticsYes -0.803 0.314 0.0105 0.0377 prevalence 1530 865 0.0209 0.0662
Clostridium_sp_AM22_11AC antibiotics Yes antibioticsYes 0.707 0.358 0.0107 0.115 abundance 1530 730 0.0212 0.0671
Clostridium_sp_AM22_11AC antibiotics Yes antibioticsYes 0.381 0.376 0.31 0.518 prevalence 1530 730 0.0212 0.0671
Clostridium_symbiosum antibiotics Yes antibioticsYes 0.759 0.378 0.0108 0.115 abundance 1530 539 0.0214 0.0675
Eubacterium_siraeum age age age 0.178 0.315 0.404 0.864 abundance 1530 565 0.0215 0.0675
Tyzzerella_nexilis reads reads reads -0.667 0.185 0.0108 0.115 abundance 1530 188 0.0215 0.0675
Clostridium_symbiosum antibiotics Yes antibioticsYes 0.11 0.274 0.689 0.866 prevalence 1530 539 0.0214 0.0675
Eubacterium_siraeum age age age 0.815 0.32 0.0108 0.0387 prevalence 1530 565 0.0215 0.0675
Tyzzerella_nexilis reads reads reads 0.154 0.138 0.264 0.46 prevalence 1530 188 0.0215 0.0675
Alistipes_onderdonkii antibiotics Yes antibioticsYes -0.901 0.271 0.0109 0.115 abundance 1530 831 0.0217 0.0678
Alistipes_onderdonkii antibiotics Yes antibioticsYes -0.482 0.433 0.266 0.461 prevalence 1530 831 0.0217 0.0678
Lachnospira_sp_NSJ_43 diagnosis UC diagnosisUC -0.192 0.972 0.702 1 abundance 1530 296 0.0229 0.0712
Lachnospira_sp_NSJ_43 diagnosis UC diagnosisUC -3.72 1.47 0.0115 0.0409 prevalence 1530 296 0.0229 0.0712
Anaerostipes_hadrus age age age -0.44 0.137 0.0115 0.118 abundance 1530 1130 0.023 0.0713
Anaerostipes_hadrus age age age -0.473 0.224 0.0347 0.0978 prevalence 1530 1130 0.023 0.0713
Parasutterella_SGB9260 antibiotics Yes antibioticsYes 1.04 0.491 0.0117 0.119 abundance 1530 269 0.0233 0.0722
Parasutterella_SGB9260 antibiotics Yes antibioticsYes -0.276 0.596 0.643 0.832 prevalence 1530 269 0.0233 0.0722
Dysgonomonas_mossii diagnosis UC diagnosisUC -9 3.81 0.0238 0.19 abundance 1530 31 0.0238 0.0736
Bacteroides_caecigallinarum antibiotics Yes antibioticsYes -1.55 0.454 0.0122 0.121 abundance 1530 21 0.0242 0.0738
Bifidobacterium_longum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.255 0.681 1 1 abundance 1530 843 0.0241 0.0738
Flavonifractor_plautii diagnosis CD diagnosisCD 1.38 0.49 0.0122 0.121 abundance 1530 1220 0.0242 0.0738
Oscillibacter_sp_ER4 age age age -0.0623 0.236 1 1 abundance 1530 458 0.0242 0.0738
Bacteroides_caecigallinarum antibiotics Yes antibioticsYes 0.45 1.32 0.733 0.896 prevalence 1530 21 0.0242 0.0738
Bifidobacterium_longum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.6 0.637 0.0121 0.0431 prevalence 1530 843 0.0241 0.0738
Flavonifractor_plautii diagnosis CD diagnosisCD 0.98 0.577 0.0894 0.204 prevalence 1530 1220 0.0242 0.0738
Oscillibacter_sp_ER4 age age age 1.51 0.604 0.0122 0.0431 prevalence 1530 458 0.0242 0.0738
Bacteroides_thetaiotaomicron age age age 0.435 0.302 0.0874 0.399 abundance 1530 1060 0.0245 0.0743
Bacteroides_thetaiotaomicron age age age 1.14 0.456 0.0123 0.0434 prevalence 1530 1060 0.0245 0.0743
Alistipes_communis age age age 0.0886 0.28 1 1 abundance 1530 407 0.025 0.0757
Collinsella_aerofaciens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 0.0804 0.564 0.17 0.554 abundance 1530 698 0.0251 0.0757
Alistipes_communis age age age 1.49 0.597 0.0126 0.0441 prevalence 1530 407 0.025 0.0757
Collinsella_aerofaciens dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.15 0.46 0.0126 0.0441 prevalence 1530 698 0.0251 0.0757
Haemophilus_parainfluenzae antibiotics Yes antibioticsYes 0.855 0.426 0.0127 0.124 abundance 1530 674 0.0252 0.0758
Haemophilus_parainfluenzae antibiotics Yes antibioticsYes -0.629 0.275 0.0221 0.0693 prevalence 1530 674 0.0252 0.0758
Alistipes_finegoldii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 3.9 1.85 0.0253 0.196 abundance 1530 639 0.0261 0.0781
Phocaeicola_coprocola reads reads reads -0.0652 0.206 1 1 abundance 1530 101 0.026 0.0781
Alistipes_finegoldii dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.49 1.41 0.0131 0.0457 prevalence 1530 639 0.0261 0.0781
Phocaeicola_coprocola reads reads reads 0.491 0.198 0.0131 0.0457 prevalence 1530 101 0.026 0.0781
Coprococcus_eutactus reads reads reads 0.25 0.175 0.0134 0.126 abundance 1530 177 0.0267 0.079
Oscillospiraceae_bacterium diagnosis CD diagnosisCD -3.28 1.26 0.0134 0.126 abundance 1530 81 0.0267 0.079
Coprococcus_eutactus reads reads reads 0.278 0.178 0.119 0.258 prevalence 1530 177 0.0267 0.079
GGB6601_SGB9333 age age age 1.74 0.782 0.0265 0.0791 prevalence 1530 69 0.0265 0.079
Oscillospiraceae_bacterium diagnosis CD diagnosisCD -1.32 1.34 0.322 0.529 prevalence 1530 81 0.0267 0.079
Prevotella_marseillensis reads reads reads 0.771 0.348 0.0266 0.0791 prevalence 1530 18 0.0266 0.079
Bacteroides_fragilis antibiotics Yes antibioticsYes -0.992 0.316 0.0135 0.126 abundance 1530 787 0.0268 0.0791
Bacteroides_fragilis antibiotics Yes antibioticsYes -0.676 0.351 0.054 0.139 prevalence 1530 787 0.0268 0.0791
GGB3278_SGB4328 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -1.65 1.57 0.544 0.969 abundance 1530 179 0.0271 0.0797
GGB3278_SGB4328 dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -2.66 1.08 0.0136 0.0471 prevalence 1530 179 0.0271 0.0797
Coprococcus_comes diagnosis UC diagnosisUC 1.32 0.448 0.0138 0.127 abundance 1530 759 0.0274 0.0799
Lacrimispora_celerecrescens antibiotics Yes antibioticsYes 0.53 0.299 0.0138 0.127 abundance 1530 756 0.0274 0.0799
Coprococcus_comes diagnosis UC diagnosisUC -0.321 0.987 0.745 0.904 prevalence 1530 759 0.0274 0.0799
Lacrimispora_celerecrescens antibiotics Yes antibioticsYes -0.587 0.342 0.0866 0.199 prevalence 1530 756 0.0274 0.0799
Ruminococcus_sp_BSD2780120874_150323_B10 diagnosis UC diagnosisUC -3.03 1.37 0.0273 0.0805 prevalence 1530 90 0.0273 0.0799
Ruminococcus_torques dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.755 0.353 1 1 abundance 1530 1090 0.0275 0.0801
Ruminococcus_torques dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.968 0.394 0.0139 0.0476 prevalence 1530 1090 0.0275 0.0801
Phascolarctobacterium_faecium age age age -0.0524 0.329 1 1 abundance 1530 503 0.0277 0.0802
Phascolarctobacterium_faecium age age age 1.35 0.547 0.0139 0.0476 prevalence 1530 503 0.0277 0.0802
Prevotella_sp_885 reads reads reads -0.0565 0.254 1 1 abundance 1530 69 0.0288 0.0833
Prevotella_sp_885 reads reads reads 0.537 0.22 0.0145 0.0493 prevalence 1530 69 0.0288 0.0833
Clostridium_sp_AF34_10BH diagnosis CD diagnosisCD -0.56 0.461 0.139 0.499 abundance 1530 960 0.0289 0.0834
Clostridium_sp_AF34_10BH diagnosis CD diagnosisCD -1.52 0.622 0.0146 0.0494 prevalence 1530 960 0.0289 0.0834
Clostridium_symbiosum diagnosis CD diagnosisCD 0.52 0.585 0.504 0.941 abundance 1530 539 0.0295 0.0848
Clostridium_symbiosum diagnosis CD diagnosisCD 1.5 0.614 0.0149 0.0502 prevalence 1530 539 0.0295 0.0848
Ruminococcus_bicirculans diagnosis CD diagnosisCD -0.231 0.483 0.46 0.9 abundance 1530 678 0.0297 0.0852
Ruminococcus_bicirculans diagnosis CD diagnosisCD -2.18 0.898 0.015 0.0504 prevalence 1530 678 0.0297 0.0852
Clostridium_sp_AT4 diagnosis CD diagnosisCD 0.161 0.66 1 1 abundance 1530 528 0.0317 0.0905
Clostridium_sp_AT4 diagnosis CD diagnosisCD 2.09 0.868 0.016 0.0535 prevalence 1530 528 0.0317 0.0905
Ruminococcus_gnavus age age age -0.437 0.211 0.0999 0.418 abundance 1530 767 0.0319 0.0908
Ruminococcus_gnavus age age age -0.59 0.245 0.0161 0.0537 prevalence 1530 767 0.0319 0.0908
Phocaeicola_dorei dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC 0.373 0.645 0.33 0.805 abundance 1530 769 0.0324 0.092
Phocaeicola_dorei dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.47 0.613 0.0163 0.0544 prevalence 1530 769 0.0324 0.092
Faecalibacterium_SGB15315 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.732 0.79 0.546 0.969 abundance 1530 619 0.0328 0.0931
Faecalibacterium_SGB15315 dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.86 0.778 0.0165 0.055 prevalence 1530 619 0.0328 0.0931
Prevotella_marseillensis antibiotics Yes antibioticsYes 2.24 1.05 0.0332 0.0945 prevalence 1530 18 0.0332 0.0938
Clostridium_leptum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -0.28 0.85 1 1 abundance 1530 652 0.0336 0.0947
Phocaeicola_vulgatus reads reads reads -0.0292 0.0489 1 1 abundance 1530 1290 0.0337 0.0947
Clostridium_leptum dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -1.72 0.721 0.017 0.0561 prevalence 1530 652 0.0336 0.0947
Phocaeicola_vulgatus reads reads reads 0.305 0.128 0.017 0.0561 prevalence 1530 1290 0.0337 0.0947
Roseburia_faecis age age age -0.123 0.188 1 1 abundance 1530 922 0.0343 0.0959
Vescimonas_coprocola diagnosis CD diagnosisCD 0.674 0.476 0.255 0.692 abundance 1530 599 0.0343 0.0959
Roseburia_faecis age age age 0.608 0.255 0.0173 0.0568 prevalence 1530 922 0.0343 0.0959
Vescimonas_coprocola diagnosis CD diagnosisCD -2.21 0.928 0.0173 0.0568 prevalence 1530 599 0.0343 0.0959
Bifidobacterium_adolescentis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD 1.03 0.722 0.0176 0.156 abundance 1530 427 0.0349 0.0967
Sutterella_wadsworthensis antibiotics Yes antibioticsYes 0.39 0.252 0.0176 0.156 abundance 1530 536 0.0348 0.0967
Bifidobacterium_adolescentis dysbiosis_state dysbiosis_CD dysbiosis_statedysbiosis_CD -0.198 0.499 0.692 0.868 prevalence 1530 427 0.0349 0.0967
GGB6601_SGB9333 reads reads reads 0.553 0.262 0.0347 0.0978 prevalence 1530 69 0.0347 0.0967
Sutterella_wadsworthensis antibiotics Yes antibioticsYes 0.533 0.486 0.272 0.469 prevalence 1530 536 0.0348 0.0967
Clostridium_fessum diagnosis UC diagnosisUC -0.014 0.497 1 1 abundance 1530 926 0.0351 0.0971
Clostridium_fessum diagnosis UC diagnosisUC -2.5 1.05 0.0177 0.0578 prevalence 1530 926 0.0351 0.0971
Akkermansia_muciniphila age age age 0.292 0.297 0.207 0.617 abundance 1530 407 0.0359 0.0986
Alistipes_communis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -2.1 1.67 0.271 0.723 abundance 1530 407 0.0359 0.0986
Alistipes_putredinis diagnosis CD diagnosisCD -0.955 0.709 0.131 0.486 abundance 1530 873 0.0359 0.0986
Akkermansia_muciniphila age age age 0.666 0.282 0.0181 0.0586 prevalence 1530 407 0.0359 0.0986
Alistipes_communis dysbiosis_state dysbiosis_UC dysbiosis_statedysbiosis_UC -3.41 1.44 0.0181 0.0586 prevalence 1530 407 0.0359 0.0986
Alistipes_putredinis diagnosis CD diagnosisCD -3 1.27 0.0181 0.0586 prevalence 1530 873 0.0359 0.0986

Note that no participant_id terms are included in the outputs; the random intercepts are just used to control for grouping. If you are interested in testing the effect of time in a longitudinal study, then the time point variable should be included as a fixed effect during your MaAsLin 3 call.

4.3 Interactions (differences in differences)

One of the benefits of MaAsLin 3’s formula mode is the ability to include interaction terms. Mathematically, an interaction term corresponds to the product of two terms in the design matrix. When a continuous variable is interacted with a categorical term, the interaction term corresponds to the change in the continuous variable’s slope between the categories. For two categorical variables interacted, see below; it is better explained through an example. In the formula, interactions can be specified with the : symbol to include only the interaction term(s) or the * symbol to include both the interaction term and the non-interacted terms.

param_list <- list(input_data = taxa_table, 
                   input_metadata = metadata, 
                   output = 'interaction_output', 
                   formula = '~ sex:diagnosis + antibiotics + age + reads')

fit_out <- maaslin3(param_list)
full_results <- rbind(fit_out$fit_data_abundance$results, 
      fit_out$fit_data_prevalence$results)
full_results <- full_results %>%
  arrange(qval_joint) %>%
  filter(metadata %in% c("diagnosis", "sex"))
rownames(full_results) <- NULL
full_results %>% 
  dplyr::mutate_if(is.numeric, .funs = function(x){(as.character(signif(x, 3)))}) %>%
  knitr::kable() %>%
  kableExtra::kable_styling("striped", position = 'center') %>% 
  kableExtra::scroll_box(width = "800px", height = "400px")
feature metadata value name coef stderr pval_individual error qval_individual model N N.not.zero pval_joint qval_joint
Lachnospira_sp_NSJ_43 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.776 0.6 NA NA NA LM 1530 296 2.43e-21 3.26e-19
Lachnospira_sp_NSJ_43 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 2.48 0.261 2.43e-21 NA 3.26e-19 logistic 1530 296 2.43e-21 3.26e-19
Dysosmobacter_sp_BX15 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.469 0.266 NA NA NA LM 1530 621 3.78e-21 4.57e-19
Dysosmobacter_sp_BX15 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.84 0.195 3.78e-21 NA 4.57e-19 logistic 1530 621 3.78e-21 4.57e-19
Clostridium_sp_AM49_4BH sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.895 0.485 NA NA NA LM 1530 344 5.4e-21 5.93e-19
Clostridium_sp_AM49_4BH sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 2.15 0.228 5.4e-21 NA 5.93e-19 logistic 1530 344 5.4e-21 5.93e-19
Clostridium_sp_AM49_4BH sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.26 0.477 NA NA NA LM 1530 344 3.43e-19 3.46e-17
Clostridium_sp_AM49_4BH sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2 0.224 3.43e-19 NA 3.46e-17 logistic 1530 344 3.43e-19 3.46e-17
GGB33469_SGB15236 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.93 0.525 NA NA NA LM 1530 293 1.14e-18 1.06e-16
GGB33469_SGB15236 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.18 0.247 1.14e-18 NA 1.06e-16 logistic 1530 293 1.14e-18 1.06e-16
Vescimonas_coprocola sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.08 0.292 NA NA NA LM 1530 599 2.64e-17 1.88e-15
Vescimonas_coprocola sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.64 0.193 2.64e-17 NA 1.68e-15 logistic 1530 599 2.64e-17 1.88e-15
Gemmiger_formicilis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.16 0.328 1 NA 1 LM 1530 472 3.48e-17 2.34e-15
Gemmiger_formicilis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.65 0.193 1.74e-17 NA 1.24e-15 logistic 1530 472 3.48e-17 2.34e-15
Alistipes_shahii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.729 0.226 NA NA NA LM 1530 673 1.13e-16 6.47e-15
Alistipes_shahii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.73 0.209 1.13e-16 NA 5.91e-15 logistic 1530 673 1.13e-16 6.47e-15
Firmicutes_bacterium_AF16_15 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.22 0.28 NA NA NA LM 1530 827 8.78e-16 4.42e-14
Firmicutes_bacterium_AF16_15 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.82 0.227 8.78e-16 NA 4.24e-14 logistic 1530 827 8.78e-16 4.42e-14
Clostridium_fessum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.153 0.22 1 NA 1 LM 1530 926 3.25e-15 1.45e-13
Clostridium_fessum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.44 0.306 1.62e-15 NA 7.55e-14 logistic 1530 926 3.25e-15 1.45e-13
Clostridium_sp_AF36_4 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.411 0.292 NA NA NA LM 1530 568 5.9e-15 2.46e-13
Clostridium_sp_AF36_4 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.48 0.189 5.9e-15 NA 2.38e-13 logistic 1530 568 5.9e-15 2.46e-13
Lacrimispora_amygdalina sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.598 0.237 NA NA NA LM 1530 865 6.18e-15 2.49e-13
Lacrimispora_amygdalina sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.7 0.218 6.18e-15 NA 2.41e-13 logistic 1530 865 6.18e-15 2.49e-13
Roseburia_sp_AF02_12 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.453 0.48 NA NA NA LM 1530 363 6.61e-15 2.58e-13
Roseburia_sp_AF02_12 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.56 0.2 6.61e-15 NA 2.5e-13 logistic 1530 363 6.61e-15 2.58e-13
Alistipes_putredinis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.61 0.255 NA NA NA LM 1530 873 6.86e-15 2.59e-13
Alistipes_putredinis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.81 0.232 6.86e-15 NA 2.51e-13 logistic 1530 873 6.86e-15 2.59e-13
Faecalibacterium_SGB15315 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.174 0.378 1 NA 1 LM 1530 619 9.63e-15 3.42e-13
Faecalibacterium_SGB15315 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.53 0.195 4.81e-15 NA 2.01e-13 logistic 1530 619 9.63e-15 3.42e-13
GGB9713_SGB15249 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.79 0.49 NA NA NA LM 1530 329 1.06e-14 3.64e-13
GGB9713_SGB15249 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.65 0.214 1.06e-14 NA 3.64e-13 logistic 1530 329 1.06e-14 3.64e-13
Clostridiaceae_bacterium_Marseille_Q4149 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.655 0.853 NA NA NA LM 1530 181 3.02e-14 9.35e-13
Clostridiaceae_bacterium_Marseille_Q4149 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.45 0.323 3.02e-14 NA 8.89e-13 logistic 1530 181 3.02e-14 9.35e-13
Eubacterium_ventriosum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.815 0.336 NA NA NA LM 1530 520 3.25e-14 9.47e-13
Eubacterium_ventriosum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.42 0.187 3.25e-14 NA 9.12e-13 logistic 1530 520 3.25e-14 9.47e-13
Enterocloster_bolteae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.87 0.401 NA NA NA LM 1530 866 9.99e-14 2.68e-12
Enterocloster_bolteae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.42 0.19 9.99e-14 NA 2.57e-12 logistic 1530 866 9.99e-14 2.68e-12
Roseburia_hominis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.156 0.276 1 NA 1 LM 1530 876 3.37e-13 8.14e-12
Roseburia_hominis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.57 0.213 1.69e-13 NA 4.24e-12 logistic 1530 876 3.37e-13 8.14e-12
Enterocloster_clostridioformis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -3.97 0.784 NA NA NA LM 1530 312 3.95e-13 9.36e-12
Enterocloster_clostridioformis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.19 0.302 3.95e-13 NA 9.18e-12 logistic 1530 312 3.95e-13 9.36e-12
Eubacterium_siraeum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.96 0.417 NA NA NA LM 1530 565 4.62e-13 1.07e-11
Eubacterium_siraeum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.35 0.187 4.62e-13 NA 1.05e-11 logistic 1530 565 4.62e-13 1.07e-11
Bifidobacterium_adolescentis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.643 0.416 NA NA NA LM 1530 427 2.5e-12 5.21e-11
Bifidobacterium_adolescentis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.39 0.198 2.5e-12 NA 5.21e-11 logistic 1530 427 2.5e-12 5.21e-11
Ruminococcus_bicirculans sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.0298 0.328 1 NA 1 LM 1530 678 6.45e-12 1.28e-10
Ruminococcus_bicirculans sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.3 0.187 3.22e-12 NA 6.6e-11 logistic 1530 678 6.45e-12 1.28e-10
Clostridiaceae_bacterium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.0118 0.215 1 NA 1 LM 1530 1110 6.7e-12 1.31e-10
Clostridiaceae_bacterium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.2 0.315 3.35e-12 NA 6.74e-11 logistic 1530 1110 6.7e-12 1.31e-10
Lachnospira_sp_NSJ_43 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.206 0.634 NA NA NA LM 1530 296 7.86e-12 1.48e-10
Lachnospira_sp_NSJ_43 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.77 0.258 7.86e-12 NA 1.46e-10 logistic 1530 296 7.86e-12 1.48e-10
Candidatus_Cibionibacter_quicibialis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.258 0.254 NA NA NA LM 1530 933 8.33e-12 1.55e-10
Candidatus_Cibionibacter_quicibialis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.67 0.244 8.33e-12 NA 1.52e-10 logistic 1530 933 8.33e-12 1.55e-10
Waltera_intestinalis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.937 0.429 NA NA NA LM 1530 524 3.25e-11 5.31e-10
Waltera_intestinalis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.23 0.185 3.25e-11 NA 5.04e-10 logistic 1530 524 3.25e-11 5.31e-10
Clostridiales_bacterium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.0899 0.241 1 NA 1 LM 1530 985 4.09e-11 6.59e-10
Clostridiales_bacterium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.51 0.226 2.05e-11 NA 3.43e-10 logistic 1530 985 4.09e-11 6.59e-10
Alistipes_onderdonkii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.186 0.31 1 NA 1 LM 1530 831 6.01e-11 9.19e-10
Alistipes_onderdonkii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.31 0.197 3.01e-11 NA 4.72e-10 logistic 1530 831 6.01e-11 9.19e-10
Collinsella_SGB14861 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.605 0.303 NA NA NA LM 1530 593 6.42e-11 9.69e-10
Collinsella_SGB14861 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.21 0.185 6.42e-11 NA 9.57e-10 logistic 1530 593 6.42e-11 9.69e-10
Alistipes_communis sex Female:diagnosisUC sexFemale:diagnosisUC -0.494 0.477 NA NA NA LM 1530 407 9.35e-11 1.38e-09
Alistipes_communis sex Female:diagnosisUC sexFemale:diagnosisUC -1.59 0.245 9.35e-11 NA 1.34e-09 logistic 1530 407 9.35e-11 1.38e-09
GGB33469_SGB15236 sex Female:diagnosisCD sexFemale:diagnosisCD 2.82 0.539 NA NA NA LM 1530 293 1.76e-10 2.44e-09
GGB33469_SGB15236 sex Female:diagnosisCD sexFemale:diagnosisCD 1.53 0.239 1.76e-10 NA 2.44e-09 logistic 1530 293 1.76e-10 2.44e-09
GGB9453_SGB14844 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.18 0.643 NA NA NA LM 1530 222 3.5e-10 4.75e-09
GGB9453_SGB14844 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.67 0.267 3.5e-10 NA 4.59e-09 logistic 1530 222 3.5e-10 4.75e-09
Clostridium_sp_AM22_11AC sex Female:diagnosisCD sexFemale:diagnosisCD -0.567 0.32 NA NA NA LM 1530 730 5.71e-10 7.41e-09
Clostridium_sp_AM22_11AC sex Female:diagnosisCD sexFemale:diagnosisCD -1.04 0.167 5.71e-10 NA 7.33e-09 logistic 1530 730 5.71e-10 7.41e-09
Coprococcus_comes sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.932 0.254 NA NA NA LM 1530 759 8.85e-10 1.13e-08
Coprococcus_comes sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.18 0.193 8.85e-10 NA 1.09e-08 logistic 1530 759 8.85e-10 1.13e-08
Oscillibacter_sp_ER4 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.208 0.309 1 NA 1 LM 1530 458 1.3e-09 1.59e-08
Oscillibacter_sp_ER4 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.15 0.186 6.52e-10 NA 8.21e-09 logistic 1530 458 1.3e-09 1.59e-08
Bacteroides_finegoldii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.528 0.645 NA NA NA LM 1530 333 1.32e-09 1.59e-08
Bacteroides_finegoldii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.33 0.219 1.32e-09 NA 1.58e-08 logistic 1530 333 1.32e-09 1.59e-08
Bacteroides_caccae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.409 0.232 NA NA NA LM 1530 958 2.41e-09 2.85e-08
Bacteroides_caccae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.19 0.199 2.41e-09 NA 2.74e-08 logistic 1530 958 2.41e-09 2.85e-08
Blautia_faecis sex Female:diagnosisUC sexFemale:diagnosisUC 0.864 0.223 NA NA NA LM 1530 1120 2.55e-09 2.99e-08
Blautia_faecis sex Female:diagnosisUC sexFemale:diagnosisUC 1.21 0.203 2.55e-09 NA 2.88e-08 logistic 1530 1120 2.55e-09 2.99e-08
Parasutterella_excrementihominis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.65 0.319 NA NA NA LM 1530 699 2.68e-09 3.09e-08
Ruminococcus_torques sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.741 0.245 NA NA NA LM 1530 1090 2.69e-09 3.09e-08
Parasutterella_excrementihominis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.09 0.183 2.68e-09 NA 2.95e-08 logistic 1530 699 2.68e-09 3.09e-08
Ruminococcus_torques sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.39 0.234 2.69e-09 NA 2.95e-08 logistic 1530 1090 2.69e-09 3.09e-08
Acidaminococcus_intestini sex Female:diagnosisCD sexFemale:diagnosisCD 1.49 0.551 NA NA NA LM 1530 173 2.83e-09 3.16e-08
Bacteroides_stercoris sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.449 0.37 NA NA NA LM 1530 826 2.78e-09 3.16e-08
Odoribacter_splanchnicus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.256 0.193 1 NA 1 LM 1530 757 2.83e-09 3.16e-08
Acidaminococcus_intestini sex Female:diagnosisCD sexFemale:diagnosisCD -1.53 0.257 2.83e-09 NA 3.05e-08 logistic 1530 173 2.83e-09 3.16e-08
Bacteroides_stercoris sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.16 0.195 2.78e-09 NA 3.02e-08 logistic 1530 826 2.78e-09 3.16e-08
Odoribacter_splanchnicus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.2 0.198 1.41e-09 NA 1.67e-08 logistic 1530 757 2.83e-09 3.16e-08
Fusicatenibacter_saccharivorans sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.146 0.213 1 NA 1 LM 1530 1120 3.93e-09 4.28e-08
Fusicatenibacter_saccharivorans sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.67 0.444 1.97e-09 NA 2.26e-08 logistic 1530 1120 3.93e-09 4.28e-08
Clostridium_sp_1001270H_150608_G6 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.909 1.9 NA NA NA LM 1530 141 4.22e-09 4.56e-08
Clostridium_sp_1001270H_150608_G6 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 3.5 0.597 4.22e-09 NA 4.36e-08 logistic 1530 141 4.22e-09 4.56e-08
Odoribacter_splanchnicus sex Female:diagnosisUC sexFemale:diagnosisUC -1.29 0.243 NA NA NA LM 1530 757 4.46e-09 4.77e-08
Odoribacter_splanchnicus sex Female:diagnosisUC sexFemale:diagnosisUC -1.02 0.174 4.46e-09 NA 4.57e-08 logistic 1530 757 4.46e-09 4.77e-08
Lachnospira_eligens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.552 0.287 NA NA NA LM 1530 929 4.75e-09 5.04e-08
Lachnospira_eligens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.14 0.195 4.75e-09 NA 4.83e-08 logistic 1530 929 4.75e-09 5.04e-08
Alistipes_finegoldii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.0571 0.295 1 NA 1 LM 1530 639 5.99e-09 6.23e-08
Alistipes_finegoldii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.1 0.185 2.99e-09 NA 3.2e-08 logistic 1530 639 5.99e-09 6.23e-08
Roseburia_inulinivorans sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.282 0.27 1 NA 1 LM 1530 951 6.63e-09 6.73e-08
Roseburia_inulinivorans sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.22 0.206 3.31e-09 NA 3.45e-08 logistic 1530 951 6.63e-09 6.73e-08
GGB3746_SGB5089 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.894 0.341 NA NA NA LM 1530 651 7.43e-09 7.48e-08
GGB3746_SGB5089 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.1 0.19 7.43e-09 NA 7.42e-08 logistic 1530 651 7.43e-09 7.48e-08
Dorea_longicatena sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.329 0.217 NA NA NA LM 1530 1020 7.75e-09 7.74e-08
Dorea_longicatena sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.26 0.218 7.75e-09 NA 7.67e-08 logistic 1530 1020 7.75e-09 7.74e-08
Phascolarctobacterium_succinatutens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.48 0.687 NA NA NA LM 1530 125 9.81e-09 9.71e-08
Phascolarctobacterium_succinatutens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.88 0.329 9.81e-09 NA 9.55e-08 logistic 1530 125 9.81e-09 9.71e-08
Sutterella_wadsworthensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.547 0.249 NA NA NA LM 1530 536 1.1e-08 1.08e-07
Sutterella_wadsworthensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.07 0.186 1.1e-08 NA 1.07e-07 logistic 1530 536 1.1e-08 1.08e-07
Bacteroides_caccae sex Female:diagnosisCD sexFemale:diagnosisCD 0.797 0.215 NA NA NA LM 1530 958 1.61e-08 1.53e-07
Bacteroides_caccae sex Female:diagnosisCD sexFemale:diagnosisCD 0.933 0.165 1.61e-08 NA 1.5e-07 logistic 1530 958 1.61e-08 1.53e-07
Clostridium_sp_1001270H_150608_G6 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.136 1.92 1 NA 1 LM 1530 141 1.75e-08 1.66e-07
Clostridium_sp_1001270H_150608_G6 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 3.42 0.595 8.77e-09 NA 8.62e-08 logistic 1530 141 1.75e-08 1.66e-07
Bacteroides_faecis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.44 0.972 NA NA NA LM 1530 434 2.07e-08 1.94e-07
Bacteroides_faecis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.52 0.272 2.07e-08 NA 1.91e-07 logistic 1530 434 2.07e-08 1.94e-07
GGB9708_SGB15234 sex Female:diagnosisCD sexFemale:diagnosisCD -0.492 0.573 NA NA NA LM 1530 282 2.18e-08 2.02e-07
GGB9708_SGB15234 sex Female:diagnosisCD sexFemale:diagnosisCD 1.23 0.219 2.18e-08 NA 1.99e-07 logistic 1530 282 2.18e-08 2.02e-07
Clostridium_sp_AT4 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.739 0.499 NA NA NA LM 1530 528 2.41e-08 2.19e-07
Clostridium_sp_AT4 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.21 0.217 2.41e-08 NA 2.17e-07 logistic 1530 528 2.41e-08 2.19e-07
GGB9708_SGB15234 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0146 0.614 1 NA 1 LM 1530 282 3.45e-08 3.04e-07
GGB9708_SGB15234 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.37 0.243 1.72e-08 NA 1.6e-07 logistic 1530 282 3.45e-08 3.04e-07
Clostridium_sp_AM22_11AC sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.95 0.278 NA NA NA LM 1530 730 3.85e-08 3.37e-07
Clostridium_sp_AM22_11AC sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.1 0.2 3.85e-08 NA 3.29e-07 logistic 1530 730 3.85e-08 3.37e-07
Clostridiaceae_bacterium_Marseille_Q4149 sex Male:diagnosisUC sexMale:diagnosisUC -0.213 0.988 NA NA NA LM 1530 181 4.38e-08 3.78e-07
Clostridiaceae_bacterium_Marseille_Q4149 sex Male:diagnosisUC sexMale:diagnosisUC 1.92 0.351 4.38e-08 NA 3.7e-07 logistic 1530 181 4.38e-08 3.78e-07
Clostridium_leptum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.91 0.336 NA NA NA LM 1530 652 5.09e-08 4.3e-07
Clostridium_leptum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.02 0.187 5.09e-08 NA 4.19e-07 logistic 1530 652 5.09e-08 4.3e-07
Clostridium_symbiosum sex Female:diagnosisUC sexFemale:diagnosisUC -1.08 0.348 NA NA NA LM 1530 539 5.17e-08 4.31e-07
Clostridium_symbiosum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.66 0.677 NA NA NA LM 1530 539 5.17e-08 4.31e-07
Clostridium_symbiosum sex Female:diagnosisUC sexFemale:diagnosisUC 0.935 0.172 5.17e-08 NA 4.19e-07 logistic 1530 539 5.17e-08 4.31e-07
Clostridium_symbiosum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.39 0.256 5.17e-08 NA 4.19e-07 logistic 1530 539 5.17e-08 4.31e-07
Parasutterella_SGB9260 sex Male:diagnosisUC sexMale:diagnosisUC 0.207 0.389 1 NA 1 LM 1530 269 5.7e-08 4.69e-07
Parasutterella_SGB9260 sex Male:diagnosisUC sexMale:diagnosisUC 1.16 0.208 2.85e-08 NA 2.49e-07 logistic 1530 269 5.7e-08 4.69e-07
Roseburia_sp_AF02_12 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.307 0.504 NA NA NA LM 1530 363 7.12e-08 5.81e-07
Roseburia_sp_AF02_12 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.11 0.206 7.12e-08 NA 5.73e-07 logistic 1530 363 7.12e-08 5.81e-07
Clostridium_leptum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.53 0.329 NA NA NA LM 1530 652 9.04e-08 7.28e-07
Clostridium_leptum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.977 0.183 9.04e-08 NA 7.23e-07 logistic 1530 652 9.04e-08 7.28e-07
Bacteroides_eggerthii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.42 0.741 NA NA NA LM 1530 409 9.5e-08 7.55e-07
Phocaeicola_dorei sex Female:diagnosisCD sexFemale:diagnosisCD -2.68 0.632 NA NA NA LM 1530 769 9.47e-08 7.55e-07
Bacteroides_eggerthii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.05 0.197 9.5e-08 NA 7.5e-07 logistic 1530 409 9.5e-08 7.55e-07
Phocaeicola_dorei sex Female:diagnosisCD sexFemale:diagnosisCD -0.902 0.169 9.47e-08 NA 7.5e-07 logistic 1530 769 9.47e-08 7.55e-07
Ruminococcus_lactaris sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.242 0.404 1 NA 1 LM 1530 379 1.02e-07 8.06e-07
Ruminococcus_lactaris sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.1 0.202 5.1e-08 NA 4.19e-07 logistic 1530 379 1.02e-07 8.06e-07
Oscillospiraceae_bacterium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 3.11 2.62 NA NA NA LM 1530 81 1.33e-07 1.04e-06
Oscillospiraceae_bacterium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 3.17 0.601 1.33e-07 NA 1.03e-06 logistic 1530 81 1.33e-07 1.04e-06
Barnesiella_intestinihominis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.11 0.36 NA NA NA LM 1530 431 1.87e-07 1.46e-06
Barnesiella_intestinihominis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.976 0.187 1.87e-07 NA 1.44e-06 logistic 1530 431 1.87e-07 1.46e-06
Coprococcus_eutactus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.29 0.642 NA NA NA LM 1530 177 1.92e-07 1.49e-06
Coprococcus_eutactus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.39 0.266 1.92e-07 NA 1.47e-06 logistic 1530 177 1.92e-07 1.49e-06
Clostridium_sp_AF34_10BH sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.611 0.28 NA NA NA LM 1530 960 2.22e-07 1.69e-06
Clostridium_sp_AF34_10BH sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.15 0.222 2.22e-07 NA 1.68e-06 logistic 1530 960 2.22e-07 1.69e-06
GGB9453_SGB14844 sex Male:diagnosisUC sexMale:diagnosisUC -0.489 0.639 NA NA NA LM 1530 222 2.36e-07 1.78e-06
GGB9453_SGB14844 sex Male:diagnosisUC sexMale:diagnosisUC 1.44 0.279 2.36e-07 NA 1.77e-06 logistic 1530 222 2.36e-07 1.78e-06
Enterocloster_clostridioformis sex Male:diagnosisUC sexMale:diagnosisUC -2.22 0.852 NA NA NA LM 1530 312 2.78e-07 2.07e-06
Enterocloster_clostridioformis sex Male:diagnosisUC sexMale:diagnosisUC -1.68 0.327 2.78e-07 NA 2.03e-06 logistic 1530 312 2.78e-07 2.07e-06
Lachnospira_eligens sex Female:diagnosisUC sexFemale:diagnosisUC 0.339 0.277 1 NA 1 LM 1530 929 2.82e-07 2.08e-06
Lachnospira_eligens sex Female:diagnosisUC sexFemale:diagnosisUC 0.904 0.172 1.41e-07 NA 1.09e-06 logistic 1530 929 2.82e-07 2.08e-06
Ruminococcus_bicirculans sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.293 0.336 NA NA NA LM 1530 678 2.94e-07 2.16e-06
Ruminococcus_bicirculans sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.956 0.187 2.94e-07 NA 2.13e-06 logistic 1530 678 2.94e-07 2.16e-06
GGB3175_SGB4191 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.69 0.779 NA NA NA LM 1530 154 3.17e-07 2.31e-06
GGB3175_SGB4191 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.39 0.272 3.17e-07 NA 2.27e-06 logistic 1530 154 3.17e-07 2.31e-06
Acidaminococcus_intestini sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.64 2.43 NA NA NA LM 1530 173 3.21e-07 2.32e-06
Acidaminococcus_intestini sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -4.1 0.801 3.21e-07 NA 2.28e-06 logistic 1530 173 3.21e-07 2.32e-06
Clostridium_sp_AF20_17LB sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.862 0.458 NA NA NA LM 1530 654 3.49e-07 2.5e-06
Clostridium_sp_AF20_17LB sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.11 0.218 3.49e-07 NA 2.45e-06 logistic 1530 654 3.49e-07 2.5e-06
Clostridium_sp_AF20_17LB sex Male:diagnosisUC sexMale:diagnosisUC 0.713 0.329 NA NA NA LM 1530 654 3.55e-07 2.52e-06
Clostridium_sp_AF20_17LB sex Male:diagnosisUC sexMale:diagnosisUC 1.01 0.199 3.55e-07 NA 2.48e-06 logistic 1530 654 3.55e-07 2.52e-06
Bacteroides_finegoldii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.69 0.725 NA NA NA LM 1530 333 3.89e-07 2.75e-06
Bacteroides_finegoldii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.16 0.229 3.89e-07 NA 2.68e-06 logistic 1530 333 3.89e-07 2.75e-06
Phocaeicola_massiliensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.41 0.458 NA NA NA LM 1530 396 4.51e-07 3.16e-06
Phocaeicola_massiliensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.952 0.189 4.51e-07 NA 3.06e-06 logistic 1530 396 4.51e-07 3.16e-06
Akkermansia_sp_KLE1798 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 3.33 1.08 NA NA NA LM 1530 70 5.66e-07 3.91e-06
Akkermansia_sp_KLE1798 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.1 0.42 5.66e-07 NA 3.8e-06 logistic 1530 70 5.66e-07 3.91e-06
Bacteroides_eggerthii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 3.05 0.774 NA NA NA LM 1530 409 5.82e-07 3.99e-06
Bacteroides_eggerthii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.01 0.201 5.82e-07 NA 3.88e-06 logistic 1530 409 5.82e-07 3.99e-06
GGB3278_SGB4328 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.112 0.695 1 NA 1 LM 1530 179 5.94e-07 4.06e-06
GGB3278_SGB4328 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.29 0.252 2.97e-07 NA 2.14e-06 logistic 1530 179 5.94e-07 4.06e-06
Firmicutes_bacterium_AF16_15 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.337 0.284 NA NA NA LM 1530 827 6.05e-07 4.1e-06
Firmicutes_bacterium_AF16_15 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.03 0.206 6.05e-07 NA 4.01e-06 logistic 1530 827 6.05e-07 4.1e-06
Eisenbergiella_massiliensis sex Female:diagnosisCD sexFemale:diagnosisCD 0.163 0.445 1 NA 1 LM 1530 417 7.51e-07 5.07e-06
Eisenbergiella_massiliensis sex Female:diagnosisCD sexFemale:diagnosisCD 0.876 0.172 3.75e-07 NA 2.61e-06 logistic 1530 417 7.51e-07 5.07e-06
Rikenellaceae_bacterium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.44 3.19 NA NA NA LM 1530 67 8.65e-07 5.71e-06
Rikenellaceae_bacterium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 3.54 0.72 8.65e-07 NA 5.62e-06 logistic 1530 67 8.65e-07 5.71e-06
GGB3304_SGB4367 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.06 0.576 NA NA NA LM 1530 155 8.92e-07 5.86e-06
GGB3304_SGB4367 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.3 0.264 8.92e-07 NA 5.76e-06 logistic 1530 155 8.92e-07 5.86e-06
Escherichia_coli sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -3.1 0.486 NA NA NA LM 1530 707 9.03e-07 5.9e-06
Escherichia_coli sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.935 0.19 9.03e-07 NA 5.81e-06 logistic 1530 707 9.03e-07 5.9e-06
Acidaminococcus_intestini sex Male:diagnosisUC sexMale:diagnosisUC 1.84 1.44 NA NA NA LM 1530 173 9.81e-07 6.34e-06
Acidaminococcus_intestini sex Male:diagnosisUC sexMale:diagnosisUC -2.8 0.573 9.81e-07 NA 6.17e-06 logistic 1530 173 9.81e-07 6.34e-06
Parasutterella_excrementihominis sex Male:diagnosisUC sexMale:diagnosisUC 0.0745 0.343 1 NA 1 LM 1530 699 1.03e-06 6.59e-06
Parasutterella_excrementihominis sex Male:diagnosisUC sexMale:diagnosisUC 0.982 0.196 5.13e-07 NA 3.46e-06 logistic 1530 699 1.03e-06 6.59e-06
Phocaeicola_plebeius sex Male:diagnosisUC sexMale:diagnosisUC 4.14 0.893 NA NA NA LM 1530 127 1.14e-06 7.26e-06
Phocaeicola_plebeius sex Male:diagnosisUC sexMale:diagnosisUC 1.45 0.298 1.14e-06 NA 7e-06 logistic 1530 127 1.14e-06 7.26e-06
GGB3277_SGB4327 sex Female:diagnosisCD sexFemale:diagnosisCD -0.726 1.26 NA NA NA LM 1530 152 1.19e-06 7.58e-06
GGB3277_SGB4327 sex Female:diagnosisCD sexFemale:diagnosisCD -2.33 0.479 1.19e-06 NA 7.31e-06 logistic 1530 152 1.19e-06 7.58e-06
Dysosmobacter_sp_BX15 sex Female:diagnosisCD sexFemale:diagnosisCD 0.027 0.266 1 NA 1 LM 1530 621 1.33e-06 8.43e-06
Dysosmobacter_sp_BX15 sex Female:diagnosisCD sexFemale:diagnosisCD 0.824 0.166 6.66e-07 NA 4.4e-06 logistic 1530 621 1.33e-06 8.43e-06
Roseburia_hominis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.35 0.295 NA NA NA LM 1530 876 1.36e-06 8.54e-06
Roseburia_hominis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.933 0.193 1.36e-06 NA 8.28e-06 logistic 1530 876 1.36e-06 8.54e-06
Vescimonas_coprocola sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.394 0.313 NA NA NA LM 1530 599 1.57e-06 9.74e-06
Vescimonas_coprocola sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.888 0.185 1.57e-06 NA 9.45e-06 logistic 1530 599 1.57e-06 9.74e-06
GGB1266_SGB1699 sex Male:diagnosisUC sexMale:diagnosisUC 3 1.32 NA NA NA LM 1530 84 1.74e-06 1.07e-05
GGB1266_SGB1699 sex Male:diagnosisUC sexMale:diagnosisUC 2.24 0.469 1.74e-06 NA 1.03e-05 logistic 1530 84 1.74e-06 1.07e-05
Clostridium_sp_AF20_17LB sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.59 0.331 NA NA NA LM 1530 654 1.76e-06 1.08e-05
Clostridium_sp_AF20_17LB sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.875 0.183 1.76e-06 NA 1.04e-05 logistic 1530 654 1.76e-06 1.08e-05
Clostridium_leptum sex Female:diagnosisUC sexFemale:diagnosisUC 1.07 0.329 NA NA NA LM 1530 652 1.82e-06 1.11e-05
Clostridium_leptum sex Female:diagnosisUC sexFemale:diagnosisUC 0.81 0.17 1.82e-06 NA 1.07e-05 logistic 1530 652 1.82e-06 1.11e-05
Acidaminococcus_intestini sex Female:diagnosisUC sexFemale:diagnosisUC 1.63 0.536 NA NA NA LM 1530 173 2.14e-06 1.28e-05
Acidaminococcus_intestini sex Female:diagnosisUC sexFemale:diagnosisUC -1.17 0.246 2.14e-06 NA 1.25e-05 logistic 1530 173 2.14e-06 1.28e-05
Bacteroides_fragilis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.09 0.404 NA NA NA LM 1530 787 2.16e-06 1.28e-05
Bacteroides_fragilis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.852 0.18 2.16e-06 NA 1.25e-05 logistic 1530 787 2.16e-06 1.28e-05
Bifidobacterium_adolescentis sex Male:diagnosisUC sexMale:diagnosisUC -0.0579 0.469 1 NA 1 LM 1530 427 2.19e-06 1.28e-05
Clostridium_sp_AF36_4 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0178 0.319 1 NA 1 LM 1530 568 2.2e-06 1.28e-05
Faecalibacterium_prausnitzii sex Male:diagnosisUC sexMale:diagnosisUC 0.687 0.185 NA NA NA LM 1530 1370 2.19e-06 1.28e-05
GGB33512_SGB15201 sex Female:diagnosisCD sexFemale:diagnosisCD 2.1 1.86 NA NA NA LM 1530 121 2.2e-06 1.28e-05
Bifidobacterium_adolescentis sex Male:diagnosisUC sexMale:diagnosisUC 1.05 0.215 1.09e-06 NA 6.81e-06 logistic 1530 427 2.19e-06 1.28e-05
Clostridium_sp_AF36_4 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.934 0.192 1.1e-06 NA 6.81e-06 logistic 1530 568 2.2e-06 1.28e-05
Faecalibacterium_prausnitzii sex Male:diagnosisUC sexMale:diagnosisUC 2.31 0.488 2.19e-06 NA 1.26e-05 logistic 1530 1370 2.19e-06 1.28e-05
GGB33512_SGB15201 sex Female:diagnosisCD sexFemale:diagnosisCD 2.49 0.527 2.2e-06 NA 1.26e-05 logistic 1530 121 2.2e-06 1.28e-05
Parabacteroides_merdae sex Female:diagnosisCD sexFemale:diagnosisCD 1.13 0.236 NA NA NA LM 1530 826 2.98e-06 1.71e-05
Parabacteroides_merdae sex Female:diagnosisCD sexFemale:diagnosisCD 0.742 0.159 2.98e-06 NA 1.69e-05 logistic 1530 826 2.98e-06 1.71e-05
Phocaeicola_massiliensis sex Male:diagnosisUC sexMale:diagnosisUC -0.77 0.504 NA NA NA LM 1530 396 3.45e-06 1.95e-05
Phocaeicola_massiliensis sex Male:diagnosisUC sexMale:diagnosisUC 0.943 0.203 3.45e-06 NA 1.9e-05 logistic 1530 396 3.45e-06 1.95e-05
Prevotella_sp_885 sex Female:diagnosisCD sexFemale:diagnosisCD -8.62 2.15 NA NA NA LM 1530 69 3.5e-06 1.96e-05
Prevotella_sp_885 sex Female:diagnosisCD sexFemale:diagnosisCD -2.46 0.53 3.5e-06 NA 1.92e-05 logistic 1530 69 3.5e-06 1.96e-05
GGB9713_SGB15249 sex Female:diagnosisCD sexFemale:diagnosisCD 1.7 0.492 NA NA NA LM 1530 329 3.69e-06 2.06e-05
GGB9713_SGB15249 sex Female:diagnosisCD sexFemale:diagnosisCD 0.957 0.207 3.69e-06 NA 2.01e-05 logistic 1530 329 3.69e-06 2.06e-05
GGB51647_SGB4348 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.616 0.783 NA NA NA LM 1530 123 3.86e-06 2.13e-05
GGB51647_SGB4348 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.46 0.315 3.86e-06 NA 2.09e-05 logistic 1530 123 3.86e-06 2.13e-05
Clostridium_sp_AM22_11AC sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.41 0.361 NA NA NA LM 1530 730 4.06e-06 2.23e-05
Clostridium_sp_AM22_11AC sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.874 0.19 4.06e-06 NA 2.18e-05 logistic 1530 730 4.06e-06 2.23e-05
Prevotella_stercorea sex Female:diagnosisUC sexFemale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 40 4.15e-06 2.27e-05
Prevotella_stercorea sex Female:diagnosisUC sexFemale:diagnosisUC 3.39 0.736 4.15e-06 NA 2.21e-05 logistic 1530 40 4.15e-06 2.27e-05
Anaerostipes_hadrus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.724 0.226 NA NA NA LM 1530 1130 5.08e-06 2.75e-05
Anaerostipes_hadrus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.02 0.224 5.08e-06 NA 2.67e-05 logistic 1530 1130 5.08e-06 2.75e-05
Eubacterium_rectale sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.313 0.212 NA NA NA LM 1530 1210 5.3e-06 2.86e-05
Eubacterium_rectale sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.89 0.635 5.3e-06 NA 2.76e-05 logistic 1530 1210 5.3e-06 2.86e-05
Ruminococcus_lactaris sex Female:diagnosisUC sexFemale:diagnosisUC 0.793 0.394 NA NA NA LM 1530 379 5.49e-06 2.95e-05
Ruminococcus_lactaris sex Female:diagnosisUC sexFemale:diagnosisUC 0.855 0.188 5.49e-06 NA 2.85e-05 logistic 1530 379 5.49e-06 2.95e-05
Prevotella_sp_885 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -4.2 3.62 NA NA NA LM 1530 69 5.55e-06 2.96e-05
Prevotella_sp_885 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -3.75 0.826 5.55e-06 NA 2.86e-05 logistic 1530 69 5.55e-06 2.96e-05
Parasutterella_SGB9260 sex Female:diagnosisCD sexFemale:diagnosisCD 0.643 0.556 NA NA NA LM 1530 269 5.93e-06 3.15e-05
Parasutterella_SGB9260 sex Female:diagnosisCD sexFemale:diagnosisCD -1.21 0.267 5.93e-06 NA 3.03e-05 logistic 1530 269 5.93e-06 3.15e-05
Proteus_mirabilis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.83 0.882 NA NA NA LM 1530 100 6.11e-06 3.24e-05
Proteus_mirabilis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.36 0.301 6.11e-06 NA 3.11e-05 logistic 1530 100 6.11e-06 3.24e-05
Bacteroides_stercoris sex Male:diagnosisUC sexMale:diagnosisUC 0.0954 0.392 1 NA 1 LM 1530 826 6.21e-06 3.26e-05
Bacteroides_stercoris sex Male:diagnosisUC sexMale:diagnosisUC 0.925 0.198 3.1e-06 NA 1.74e-05 logistic 1530 826 6.21e-06 3.26e-05
Prevotella_copri_clade_E sex Female:diagnosisUC sexFemale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 38 7.09e-06 3.66e-05
Prevotella_copri_clade_E sex Female:diagnosisUC sexFemale:diagnosisUC 3.31 0.737 7.09e-06 NA 3.55e-05 logistic 1530 38 7.09e-06 3.66e-05
Akkermansia_sp_KLE1798 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 4.24 1.1 NA NA NA LM 1530 70 7.34e-06 3.74e-05
Akkermansia_sp_KLE1798 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.89 0.42 7.34e-06 NA 3.63e-05 logistic 1530 70 7.34e-06 3.74e-05
Bacteroides_finegoldii sex Female:diagnosisUC sexFemale:diagnosisUC 1.55 0.642 NA NA NA LM 1530 333 7.67e-06 3.89e-05
Bacteroides_finegoldii sex Female:diagnosisUC sexFemale:diagnosisUC 0.96 0.215 7.67e-06 NA 3.78e-05 logistic 1530 333 7.67e-06 3.89e-05
GGB33512_SGB15201 sex Female:diagnosisUC sexFemale:diagnosisUC 2.42 1.84 NA NA NA LM 1530 121 8.82e-06 4.38e-05
GGB33512_SGB15201 sex Female:diagnosisUC sexFemale:diagnosisUC 2.37 0.533 8.82e-06 NA 4.28e-05 logistic 1530 121 8.82e-06 4.38e-05
GGB9708_SGB15234 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.414 0.622 NA NA NA LM 1530 282 8.93e-06 4.42e-05
GGB9708_SGB15234 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.06 0.239 8.93e-06 NA 4.32e-05 logistic 1530 282 8.93e-06 4.42e-05
Alistipes_onderdonkii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.05 0.328 NA NA NA LM 1530 831 9.33e-06 4.6e-05
Alistipes_onderdonkii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.831 0.187 9.33e-06 NA 4.49e-05 logistic 1530 831 9.33e-06 4.6e-05
Bacteroides_ovatus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.366 0.243 NA NA NA LM 1530 1180 1.06e-05 5.12e-05
Bacteroides_ovatus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.1 0.249 1.06e-05 NA 5.06e-05 logistic 1530 1180 1.06e-05 5.12e-05
Clostridium_sp_1001270H_150608_G6 sex Female:diagnosisCD sexFemale:diagnosisCD 0.2 1.91 1 NA 1 LM 1530 141 1.15e-05 5.56e-05
Clostridium_sp_1001270H_150608_G6 sex Female:diagnosisCD sexFemale:diagnosisCD 2.71 0.598 5.76e-06 NA 2.96e-05 logistic 1530 141 1.15e-05 5.56e-05
Parasutterella_SGB9260 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -3.33 0.65 NA NA NA LM 1530 269 1.16e-05 5.59e-05
Parasutterella_SGB9260 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.38 0.314 1.16e-05 NA 5.55e-05 logistic 1530 269 1.16e-05 5.59e-05
Lacrimispora_amygdalina sex Male:diagnosisUC sexMale:diagnosisUC 0.738 0.26 NA NA NA LM 1530 865 1.28e-05 6.12e-05
Lacrimispora_amygdalina sex Male:diagnosisUC sexMale:diagnosisUC 0.931 0.213 1.28e-05 NA 6.07e-05 logistic 1530 865 1.28e-05 6.12e-05
Clostridiaceae_bacterium sex Female:diagnosisCD sexFemale:diagnosisCD 0.396 0.204 1 NA 1 LM 1530 1110 1.35e-05 6.46e-05
Clostridiaceae_bacterium sex Female:diagnosisCD sexFemale:diagnosisCD 0.8 0.178 6.76e-06 NA 3.4e-05 logistic 1530 1110 1.35e-05 6.46e-05
Bilophila_wadsworthia sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.06 0.257 NA NA NA LM 1530 764 1.39e-05 6.62e-05
Bilophila_wadsworthia sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.838 0.193 1.39e-05 NA 6.59e-05 logistic 1530 764 1.39e-05 6.62e-05
Bacteroides_faecis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.555 0.526 NA NA NA LM 1530 434 1.41e-05 6.69e-05
Bacteroides_faecis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.817 0.188 1.41e-05 NA 6.67e-05 logistic 1530 434 1.41e-05 6.69e-05
Bifidobacterium_adolescentis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.343 0.46 1 NA 1 LM 1530 427 1.68e-05 7.89e-05
Bifidobacterium_adolescentis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.901 0.202 8.4e-06 NA 4.11e-05 logistic 1530 427 1.68e-05 7.89e-05
Enterocloster_clostridioformis sex Female:diagnosisUC sexFemale:diagnosisUC -3.53 0.498 NA NA NA LM 1530 312 1.77e-05 8.28e-05
Enterocloster_clostridioformis sex Female:diagnosisUC sexFemale:diagnosisUC -0.874 0.204 1.77e-05 NA 8.18e-05 logistic 1530 312 1.77e-05 8.28e-05
Roseburia_inulinivorans sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.573 0.271 NA NA NA LM 1530 951 1.82e-05 8.47e-05
Roseburia_inulinivorans sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.862 0.201 1.82e-05 NA 8.37e-05 logistic 1530 951 1.82e-05 8.47e-05
Clostridiales_bacterium sex Female:diagnosisCD sexFemale:diagnosisCD 0.75 0.23 NA NA NA LM 1530 985 2.05e-05 9.53e-05
Clostridiales_bacterium sex Female:diagnosisCD sexFemale:diagnosisCD 0.71 0.167 2.05e-05 NA 9.39e-05 logistic 1530 985 2.05e-05 9.53e-05
GGB3746_SGB5089 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.579 0.367 NA NA NA LM 1530 651 2.08e-05 9.61e-05
GGB3746_SGB5089 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.781 0.183 2.08e-05 NA 9.43e-05 logistic 1530 651 2.08e-05 9.61e-05
GGB9342_SGB14306 sex Female:diagnosisCD sexFemale:diagnosisCD -3.54 2.13 NA NA NA LM 1530 92 2.31e-05 0.000107
GGB9342_SGB14306 sex Female:diagnosisCD sexFemale:diagnosisCD 3.03 0.715 2.31e-05 NA 0.000104 logistic 1530 92 2.31e-05 0.000107
Collinsella_aerofaciens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.167 0.296 1 NA 1 LM 1530 698 2.87e-05 0.000131
Collinsella_aerofaciens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.778 0.179 1.44e-05 NA 6.75e-05 logistic 1530 698 2.87e-05 0.000131
Clostridiaceae_bacterium_Marseille_Q4149 sex Female:diagnosisUC sexFemale:diagnosisUC 1.49 0.931 NA NA NA LM 1530 181 3.04e-05 0.000138
Clostridiaceae_bacterium_Marseille_Q4149 sex Female:diagnosisUC sexFemale:diagnosisUC 1.41 0.338 3.04e-05 NA 0.000135 logistic 1530 181 3.04e-05 0.000138
Dysgonomonas_mossii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 11.8 6.25 NA NA NA LM 1530 31 3.15e-05 0.000142
Phocaeicola_vulgatus sex Male:diagnosisUC sexMale:diagnosisUC 1.05 0.359 NA NA NA LM 1530 1290 3.15e-05 0.000142
Dysgonomonas_mossii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 4.06 0.975 3.15e-05 NA 0.000139 logistic 1530 31 3.15e-05 0.000142
Phocaeicola_vulgatus sex Male:diagnosisUC sexMale:diagnosisUC 1.24 0.299 3.15e-05 NA 0.000139 logistic 1530 1290 3.15e-05 0.000142
GGB9342_SGB14306 sex Male:diagnosisUC sexMale:diagnosisUC -0.741 2.36 NA NA NA LM 1530 92 3.19e-05 0.000143
GGB9342_SGB14306 sex Male:diagnosisUC sexMale:diagnosisUC 3.07 0.739 3.19e-05 NA 0.00014 logistic 1530 92 3.19e-05 0.000143
Akkermansia_muciniphila sex Female:diagnosisUC sexFemale:diagnosisUC 0.259 0.545 1 NA 1 LM 1530 407 3.37e-05 0.00015
Akkermansia_muciniphila sex Female:diagnosisUC sexFemale:diagnosisUC -0.85 0.197 1.69e-05 NA 7.83e-05 logistic 1530 407 3.37e-05 0.00015
Clostridiaceae_bacterium_Marseille_Q4149 sex Female:diagnosisCD sexFemale:diagnosisCD 1.37 0.914 NA NA NA LM 1530 181 3.39e-05 0.00015
Clostridiaceae_bacterium_Marseille_Q4149 sex Female:diagnosisCD sexFemale:diagnosisCD 1.38 0.333 3.39e-05 NA 0.000148 logistic 1530 181 3.39e-05 0.00015
Parabacteroides_merdae sex Female:diagnosisUC sexFemale:diagnosisUC 0.778 0.247 NA NA NA LM 1530 826 3.57e-05 0.000158
Parabacteroides_merdae sex Female:diagnosisUC sexFemale:diagnosisUC 0.682 0.165 3.57e-05 NA 0.000154 logistic 1530 826 3.57e-05 0.000158
GGB33469_SGB15236 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.194 0.607 1 NA 1 LM 1530 293 4.07e-05 0.000179
Lacrimispora_celerecrescens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.971 0.258 NA NA NA LM 1530 756 4.07e-05 0.000179
GGB33469_SGB15236 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.17 0.275 2.04e-05 NA 9.35e-05 logistic 1530 293 4.07e-05 0.000179
Lacrimispora_celerecrescens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.751 0.183 4.07e-05 NA 0.000175 logistic 1530 756 4.07e-05 0.000179
Lachnospira_eligens sex Male:diagnosisUC sexMale:diagnosisUC -0.0553 0.326 1 NA 1 LM 1530 929 4.15e-05 0.000182
Lachnospira_eligens sex Male:diagnosisUC sexMale:diagnosisUC 0.85 0.2 2.08e-05 NA 9.43e-05 logistic 1530 929 4.15e-05 0.000182
Ruminococcus_gnavus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.5 0.4 NA NA NA LM 1530 767 4.31e-05 0.000187
Ruminococcus_gnavus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.761 0.186 4.31e-05 NA 0.000185 logistic 1530 767 4.31e-05 0.000187
Oscillospiraceae_bacterium sex Male:diagnosisUC sexMale:diagnosisUC -1.19 2.61 NA NA NA LM 1530 81 4.38e-05 0.000189
Oscillospiraceae_bacterium sex Male:diagnosisUC sexMale:diagnosisUC 2.59 0.635 4.38e-05 NA 0.000187 logistic 1530 81 4.38e-05 0.000189
Faecalibacterium_prausnitzii sex Female:diagnosisUC sexFemale:diagnosisUC 0.549 0.162 NA NA NA LM 1530 1370 4.51e-05 0.000194
Faecalibacterium_prausnitzii sex Female:diagnosisUC sexFemale:diagnosisUC 1.14 0.278 4.51e-05 NA 0.000192 logistic 1530 1370 4.51e-05 0.000194
Prevotella_sp_885 sex Female:diagnosisUC sexFemale:diagnosisUC -0.368 1.43 NA NA NA LM 1530 69 4.57e-05 0.000196
Prevotella_sp_885 sex Female:diagnosisUC sexFemale:diagnosisUC -1.68 0.412 4.57e-05 NA 0.000194 logistic 1530 69 4.57e-05 0.000196
GGB33512_SGB15201 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 5.26 1.92 NA NA NA LM 1530 121 4.69e-05 2e-04
GGB33512_SGB15201 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 2.29 0.562 4.69e-05 NA 0.000198 logistic 1530 121 4.69e-05 2e-04
GGB33512_SGB15201 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 5.01 1.87 NA NA NA LM 1530 121 4.98e-05 0.000211
GGB33512_SGB15201 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.21 0.545 4.98e-05 NA 0.000209 logistic 1530 121 4.98e-05 0.000211
Clostridium_sp_AF34_10BH sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.668 0.287 NA NA NA LM 1530 960 5.12e-05 0.000216
Clostridium_sp_AF34_10BH sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.847 0.209 5.12e-05 NA 0.000215 logistic 1530 960 5.12e-05 0.000216
Paraprevotella_clara sex Male:diagnosisUC sexMale:diagnosisUC 0.424 0.881 NA NA NA LM 1530 178 5.21e-05 0.000219
Paraprevotella_clara sex Male:diagnosisUC sexMale:diagnosisUC 1.06 0.261 5.21e-05 NA 0.000218 logistic 1530 178 5.21e-05 0.000219
Alistipes_finegoldii sex Male:diagnosisUC sexMale:diagnosisUC -2.13 0.486 NA NA NA LM 1530 639 5.34e-05 0.000224
Alistipes_finegoldii sex Male:diagnosisUC sexMale:diagnosisUC -0.901 0.223 5.34e-05 NA 0.000222 logistic 1530 639 5.34e-05 0.000224
Bilophila_wadsworthia sex Female:diagnosisUC sexFemale:diagnosisUC 1.03 0.284 NA NA NA LM 1530 764 5.58e-05 0.000233
Eisenbergiella_massiliensis sex Female:diagnosisUC sexFemale:diagnosisUC 0.551 0.497 NA NA NA LM 1530 417 5.58e-05 0.000233
Bilophila_wadsworthia sex Female:diagnosisUC sexFemale:diagnosisUC -0.686 0.17 5.58e-05 NA 0.000231 logistic 1530 764 5.58e-05 0.000233
Eisenbergiella_massiliensis sex Female:diagnosisUC sexFemale:diagnosisUC 0.732 0.182 5.58e-05 NA 0.000231 logistic 1530 417 5.58e-05 0.000233
Ruminococcus_lactaris sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.597 0.398 NA NA NA LM 1530 379 5.75e-05 0.000238
Ruminococcus_lactaris sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.805 0.2 5.75e-05 NA 0.000237 logistic 1530 379 5.75e-05 0.000238
Parabacteroides_merdae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.01 0.26 NA NA NA LM 1530 826 5.83e-05 0.00024
Parabacteroides_merdae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.722 0.18 5.83e-05 NA 0.00024 logistic 1530 826 5.83e-05 0.00024
GGB9342_SGB14306 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -3.21 2.18 NA NA NA LM 1530 92 6.04e-05 0.000248
GGB9342_SGB14306 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.89 0.722 6.04e-05 NA 0.000247 logistic 1530 92 6.04e-05 0.000248
Bacteroides_caecigallinarum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -5.02 6.55 NA NA NA LM 1530 21 6.38e-05 0.000261
Bacteroides_caecigallinarum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 3.03 0.758 6.38e-05 NA 0.00026 logistic 1530 21 6.38e-05 0.000261
Gemmiger_formicilis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.46 0.369 NA NA NA LM 1530 472 6.72e-05 0.000274
Gemmiger_formicilis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.769 0.193 6.72e-05 NA 0.000273 logistic 1530 472 6.72e-05 0.000274
Eubacterium_ventriosum sex Female:diagnosisUC sexFemale:diagnosisUC -0.872 0.35 NA NA NA LM 1530 520 6.81e-05 0.000277
Eubacterium_ventriosum sex Female:diagnosisUC sexFemale:diagnosisUC 0.695 0.175 6.81e-05 NA 0.000276 logistic 1530 520 6.81e-05 0.000277
Alistipes_shahii sex Female:diagnosisUC sexFemale:diagnosisUC -0.0844 0.29 NA NA NA LM 1530 673 7.28e-05 0.000294
Alistipes_shahii sex Female:diagnosisUC sexFemale:diagnosisUC -0.695 0.175 7.28e-05 NA 0.000293 logistic 1530 673 7.28e-05 0.000294
Parabacteroides_distasonis sex Female:diagnosisCD sexFemale:diagnosisCD -0.42 0.184 NA NA NA LM 1530 1140 7.65e-05 0.000308
Parabacteroides_distasonis sex Female:diagnosisCD sexFemale:diagnosisCD -0.68 0.172 7.65e-05 NA 0.000306 logistic 1530 1140 7.65e-05 0.000308
Flavonifractor_plautii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.7 0.245 NA NA NA LM 1530 1220 7.74e-05 0.000311
Flavonifractor_plautii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.824 0.209 7.74e-05 NA 0.000309 logistic 1530 1220 7.74e-05 0.000311
GGB9713_SGB15249 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.5 0.56 NA NA NA LM 1530 329 8.37e-05 0.000335
GGB9713_SGB15249 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.922 0.234 8.37e-05 NA 0.00033 logistic 1530 329 8.37e-05 0.000335
Butyrivibrio_crossotus sex Male:diagnosisUC sexMale:diagnosisUC 1.9 2.1 NA NA NA LM 1530 43 8.85e-05 0.000353
Butyrivibrio_crossotus sex Male:diagnosisUC sexMale:diagnosisUC 3.92 1 8.85e-05 NA 0.000348 logistic 1530 43 8.85e-05 0.000353
Eubacterium_siraeum sex Female:diagnosisCD sexFemale:diagnosisCD 3.04 0.415 NA NA NA LM 1530 565 0.000104 0.000414
Eubacterium_siraeum sex Female:diagnosisCD sexFemale:diagnosisCD 0.646 0.166 0.000104 NA 0.000405 logistic 1530 565 0.000104 0.000414
Anaerostipes_hadrus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1 0.23 NA NA NA LM 1530 1130 0.00011 0.000434
Anaerostipes_hadrus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.918 0.237 0.00011 NA 0.000423 logistic 1530 1130 0.00011 0.000434
Ruthenibacterium_lactatiformans sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.52 0.321 NA NA NA LM 1530 797 0.000139 0.000545
Ruthenibacterium_lactatiformans sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.709 0.186 0.000139 NA 0.000529 logistic 1530 797 0.000139 0.000545
Roseburia_hominis sex Female:diagnosisCD sexFemale:diagnosisCD 0.89 0.275 NA NA NA LM 1530 876 0.000141 0.000549
Roseburia_hominis sex Female:diagnosisCD sexFemale:diagnosisCD 0.617 0.162 0.000141 NA 0.000534 logistic 1530 876 0.000141 0.000549
Parabacteroides_merdae sex Male:diagnosisUC sexMale:diagnosisUC 0.348 0.284 1 NA 1 LM 1530 826 0.000145 0.000562
Parabacteroides_merdae sex Male:diagnosisUC sexMale:diagnosisUC 0.772 0.195 7.27e-05 NA 0.000293 logistic 1530 826 0.000145 0.000562
Ruminococcus_bromii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.36 0.36 NA NA NA LM 1530 429 0.000147 0.000565
Ruminococcus_bromii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.729 0.192 0.000147 NA 0.000549 logistic 1530 429 0.000147 0.000565
GGB3746_SGB5089 sex Male:diagnosisUC sexMale:diagnosisUC 1.89 0.391 NA NA NA LM 1530 651 0.000149 0.000573
GGB3746_SGB5089 sex Male:diagnosisUC sexMale:diagnosisUC 0.762 0.201 0.000149 NA 0.000557 logistic 1530 651 0.000149 0.000573
Lachnospira_sp_NSJ_43 sex Male:diagnosisUC sexMale:diagnosisUC 0.318 0.773 1 NA 1 LM 1530 296 0.00015 0.000573
Lachnospira_sp_NSJ_43 sex Male:diagnosisUC sexMale:diagnosisUC 1.17 0.295 7.49e-05 NA 0.000301 logistic 1530 296 0.00015 0.000573
Phascolarctobacterium_succinatutens sex Male:diagnosisUC sexMale:diagnosisUC 0.168 0.842 1 NA 1 LM 1530 125 0.000157 0.000598
Phascolarctobacterium_succinatutens sex Male:diagnosisUC sexMale:diagnosisUC 1.41 0.357 7.84e-05 NA 0.000312 logistic 1530 125 0.000157 0.000598
Bacteroides_caccae sex Male:diagnosisUC sexMale:diagnosisUC 0.393 0.262 1 NA 1 LM 1530 958 0.000163 0.000618
Bacteroides_caccae sex Male:diagnosisUC sexMale:diagnosisUC 0.786 0.199 8.13e-05 NA 0.000322 logistic 1530 958 0.000163 0.000618
Bacteroides_cellulosilyticus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 2.2 0.452 NA NA NA LM 1530 433 0.000178 0.000675
Bacteroides_cellulosilyticus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.737 0.197 0.000178 NA 0.000661 logistic 1530 433 0.000178 0.000675
Lachnospira_eligens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.367 0.31 NA NA NA LM 1530 929 0.00018 0.00068
Lachnospira_eligens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.699 0.187 0.00018 NA 0.000665 logistic 1530 929 0.00018 0.00068
GGB1266_SGB1699 sex Female:diagnosisCD sexFemale:diagnosisCD 6.74 1.04 NA NA NA LM 1530 84 0.000188 0.000704
GGB1266_SGB1699 sex Female:diagnosisCD sexFemale:diagnosisCD 1.72 0.46 0.000188 NA 0.000689 logistic 1530 84 0.000188 0.000704
Alistipes_putredinis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.51 0.278 NA NA NA LM 1530 873 0.000195 0.000726
Alistipes_putredinis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.698 0.187 0.000195 NA 0.000713 logistic 1530 873 0.000195 0.000726
Dorea_longicatena sex Female:diagnosisCD sexFemale:diagnosisCD 0.33 0.208 1 NA 1 LM 1530 1020 0.000197 0.000729
Phocaeicola_massiliensis sex Female:diagnosisCD sexFemale:diagnosisCD -1.26 0.598 NA NA NA LM 1530 396 0.000197 0.000729
Dorea_longicatena sex Female:diagnosisCD sexFemale:diagnosisCD 0.656 0.169 9.84e-05 NA 0.000385 logistic 1530 1020 0.000197 0.000729
Phocaeicola_massiliensis sex Female:diagnosisCD sexFemale:diagnosisCD -0.796 0.214 0.000197 NA 0.000718 logistic 1530 396 0.000197 0.000729
Bacteroides_intestinalis sex Female:diagnosisCD sexFemale:diagnosisCD 0.176 0.764 1 NA 1 LM 1530 158 2e-04 0.000738
Klebsiella_pneumoniae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.584 1.58 NA NA NA LM 1530 119 2e-04 0.000738
Bacteroides_intestinalis sex Female:diagnosisCD sexFemale:diagnosisCD -1.04 0.267 1e-04 NA 0.00039 logistic 1530 158 2e-04 0.000738
Klebsiella_pneumoniae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.72 0.463 2e-04 NA 0.000729 logistic 1530 119 2e-04 0.000738
Clostridiales_bacterium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.387 0.261 1 NA 1 LM 1530 985 0.000214 0.000784
Clostridiales_bacterium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.755 0.195 0.000107 NA 0.000414 logistic 1530 985 0.000214 0.000784
Phocaeicola_vulgatus sex Female:diagnosisUC sexFemale:diagnosisUC 0.526 0.31 NA NA NA LM 1530 1290 0.000219 0.000802
Phocaeicola_vulgatus sex Female:diagnosisUC sexFemale:diagnosisUC 0.831 0.225 0.000219 NA 0.000795 logistic 1530 1290 0.000219 0.000802
Bacteroides_xylanisolvens sex Female:diagnosisUC sexFemale:diagnosisUC -2.52 0.385 NA NA NA LM 1530 959 0.000221 0.000803
Bacteroides_xylanisolvens sex Female:diagnosisUC sexFemale:diagnosisUC -0.63 0.17 0.000221 NA 0.000796 logistic 1530 959 0.000221 0.000803
Prevotella_stercorea sex Female:diagnosisCD sexFemale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 40 0.000222 0.000806
Prevotella_stercorea sex Female:diagnosisCD sexFemale:diagnosisCD 2.74 0.741 0.000222 NA 0.000799 logistic 1530 40 0.000222 0.000806
Hungatella_hathewayi sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.246 0.618 NA NA NA LM 1530 451 0.000254 0.000915
Hungatella_hathewayi sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.832 0.228 0.000254 NA 0.000902 logistic 1530 451 0.000254 0.000915
Bacteroides_eggerthii sex Male:diagnosisUC sexMale:diagnosisUC 3.05 0.905 NA NA NA LM 1530 409 0.000268 0.000961
Bacteroides_eggerthii sex Male:diagnosisUC sexMale:diagnosisUC 0.803 0.22 0.000268 NA 0.000944 logistic 1530 409 0.000268 0.000961
Bacteroides_fragilis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.14 0.384 NA NA NA LM 1530 787 0.000274 0.000976
Tyzzerella_nexilis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.37 1.81 NA NA NA LM 1530 188 0.000274 0.000976
Bacteroides_fragilis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.665 0.183 0.000274 NA 0.00096 logistic 1530 787 0.000274 0.000976
Tyzzerella_nexilis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.34 0.643 0.000274 NA 0.00096 logistic 1530 188 0.000274 0.000976
GGB1680_SGB2312 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 12 0.000281 0.000999
GGB1680_SGB2312 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 3.85 1.06 0.000281 NA 0.000979 logistic 1530 12 0.000281 0.000999
Prevotella_copri_clade_A sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.9 0.871 NA NA NA LM 1530 289 0.000295 0.00104
Prevotella_copri_clade_A sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.772 0.213 0.000295 NA 0.00102 logistic 1530 289 0.000295 0.00104
Phocaeicola_coprocola sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -5.27 2.58 NA NA NA LM 1530 101 0.000301 0.00106
Phocaeicola_coprocola sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.36 0.652 0.000301 NA 0.00104 logistic 1530 101 0.000301 0.00106
Clostridiaceae_bacterium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.346 0.228 NA NA NA LM 1530 1110 0.000317 0.00111
Klebsiella_pneumoniae sex Female:diagnosisUC sexFemale:diagnosisUC -2.09 1.1 NA NA NA LM 1530 119 0.000318 0.00111
Clostridiaceae_bacterium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.763 0.212 0.000317 NA 0.00109 logistic 1530 1110 0.000317 0.00111
Klebsiella_pneumoniae sex Female:diagnosisUC sexFemale:diagnosisUC -1.27 0.354 0.000318 NA 0.00109 logistic 1530 119 0.000318 0.00111
Alistipes_shahii sex Female:diagnosisCD sexFemale:diagnosisCD 1.07 0.269 NA NA NA LM 1530 673 0.000331 0.00114
Alistipes_shahii sex Female:diagnosisCD sexFemale:diagnosisCD -0.592 0.165 0.000331 NA 0.00113 logistic 1530 673 0.000331 0.00114
Clostridium_sp_AT4 sex Female:diagnosisUC sexFemale:diagnosisUC 1.04 0.307 NA NA NA LM 1530 528 0.000339 0.00117
Clostridium_sp_AT4 sex Female:diagnosisUC sexFemale:diagnosisUC 0.599 0.167 0.000339 NA 0.00115 logistic 1530 528 0.000339 0.00117
Faecalibacterium_prausnitzii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.486 0.171 NA NA NA LM 1530 1370 0.000354 0.00121
Faecalibacterium_prausnitzii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 4.52 1.26 0.000354 NA 0.0012 logistic 1530 1370 0.000354 0.00121
Prevotella_copri_clade_E sex Female:diagnosisCD sexFemale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 38 0.000365 0.00125
Prevotella_copri_clade_E sex Female:diagnosisCD sexFemale:diagnosisCD 2.65 0.744 0.000365 NA 0.00123 logistic 1530 38 0.000365 0.00125
Collinsella_SGB14861 sex Female:diagnosisUC sexFemale:diagnosisUC 1.06 0.361 NA NA NA LM 1530 593 0.000368 0.00125
Collinsella_SGB14861 sex Female:diagnosisUC sexFemale:diagnosisUC -0.644 0.181 0.000368 NA 0.00123 logistic 1530 593 0.000368 0.00125
Parasutterella_excrementihominis sex Female:diagnosisUC sexFemale:diagnosisUC -0.585 0.315 NA NA NA LM 1530 699 0.000369 0.00125
Parasutterella_excrementihominis sex Female:diagnosisUC sexFemale:diagnosisUC 0.591 0.166 0.000369 NA 0.00123 logistic 1530 699 0.000369 0.00125
Akkermansia_muciniphila sex Female:diagnosisCD sexFemale:diagnosisCD 1.47 0.507 NA NA NA LM 1530 407 0.000383 0.0013
Akkermansia_muciniphila sex Female:diagnosisCD sexFemale:diagnosisCD -0.673 0.189 0.000383 NA 0.00127 logistic 1530 407 0.000383 0.0013
GGB3267_SGB4317 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 3 1.65 NA NA NA LM 1530 54 0.000404 0.00136
GGB3267_SGB4317 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.25 0.636 0.000404 NA 0.00134 logistic 1530 54 0.000404 0.00136
Faecalibacterium_SGB15346 sex Female:diagnosisCD sexFemale:diagnosisCD 0.0413 0.314 1 NA 1 LM 1530 743 0.000459 0.00154
Faecalibacterium_SGB15346 sex Female:diagnosisCD sexFemale:diagnosisCD -0.589 0.16 0.000229 NA 0.00082 logistic 1530 743 0.000459 0.00154
GGB3175_SGB4191 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 2.57 0.772 NA NA NA LM 1530 154 0.000495 0.00165
GGB3175_SGB4191 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.02 0.293 0.000495 NA 0.00161 logistic 1530 154 0.000495 0.00165
Roseburia_inulinivorans sex Male:diagnosisUC sexMale:diagnosisUC 0.032 0.294 1 NA 1 LM 1530 951 0.000498 0.00166
Roseburia_inulinivorans sex Male:diagnosisUC sexMale:diagnosisUC 0.758 0.207 0.000249 NA 0.000887 logistic 1530 951 0.000498 0.00166
Clostridium_sp_AF20_17LB sex Female:diagnosisUC sexFemale:diagnosisUC 0.868 0.299 NA NA NA LM 1530 654 0.000532 0.00176
Clostridium_sp_AF20_17LB sex Female:diagnosisUC sexFemale:diagnosisUC 0.581 0.168 0.000532 NA 0.00172 logistic 1530 654 0.000532 0.00176
Bifidobacterium_adolescentis sex Female:diagnosisUC sexFemale:diagnosisUC 3.01 0.438 NA NA NA LM 1530 427 0.000542 0.00178
Bifidobacterium_adolescentis sex Female:diagnosisUC sexFemale:diagnosisUC 0.669 0.193 0.000542 NA 0.00175 logistic 1530 427 0.000542 0.00178
Blautia_wexlerae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.672 0.219 NA NA NA LM 1530 1300 0.000555 0.00182
GGB9480_SGB14874 sex Female:diagnosisCD sexFemale:diagnosisCD 0.238 0.345 1 NA 1 LM 1530 332 0.000555 0.00182
Blautia_wexlerae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.08 0.314 0.000555 NA 0.00178 logistic 1530 1300 0.000555 0.00182
GGB9480_SGB14874 sex Female:diagnosisCD sexFemale:diagnosisCD 0.672 0.185 0.000278 NA 0.00097 logistic 1530 332 0.000555 0.00182
Anaerostipes_hadrus sex Male:diagnosisUC sexMale:diagnosisUC 0.45 0.251 NA NA NA LM 1530 1130 0.000559 0.00182
Anaerostipes_hadrus sex Male:diagnosisUC sexMale:diagnosisUC 0.812 0.235 0.000559 NA 0.00179 logistic 1530 1130 0.000559 0.00182
Roseburia_inulinivorans sex Female:diagnosisUC sexFemale:diagnosisUC -0.283 0.256 NA NA NA LM 1530 951 0.000566 0.00184
Roseburia_inulinivorans sex Female:diagnosisUC sexFemale:diagnosisUC 0.591 0.172 0.000566 NA 0.0018 logistic 1530 951 0.000566 0.00184
Ruminococcus_lactaris sex Female:diagnosisCD sexFemale:diagnosisCD -1.3 0.544 NA NA NA LM 1530 379 0.000598 0.00194
Ruminococcus_lactaris sex Female:diagnosisCD sexFemale:diagnosisCD -0.827 0.241 0.000598 NA 0.0019 logistic 1530 379 0.000598 0.00194
Waltera_intestinalis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.895 0.47 NA NA NA LM 1530 524 0.00063 0.00204
Waltera_intestinalis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.65 0.19 0.00063 NA 0.00199 logistic 1530 524 0.00063 0.00204
Bifidobacterium_longum sex Female:diagnosisUC sexFemale:diagnosisUC -0.562 0.28 NA NA NA LM 1530 843 0.000643 0.00207
GGB51647_SGB4348 sex Female:diagnosisUC sexFemale:diagnosisUC -0.466 0.803 NA NA NA LM 1530 123 0.000645 0.00207
Bifidobacterium_longum sex Female:diagnosisUC sexFemale:diagnosisUC 0.592 0.174 0.000643 NA 0.00202 logistic 1530 843 0.000643 0.00207
GGB51647_SGB4348 sex Female:diagnosisUC sexFemale:diagnosisUC 1.08 0.317 0.000645 NA 0.00202 logistic 1530 123 0.000645 0.00207
Dialister_invisus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.09 0.301 NA NA NA LM 1530 726 0.000653 0.00209
Dialister_invisus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.634 0.186 0.000653 NA 0.00204 logistic 1530 726 0.000653 0.00209
Roseburia_intestinalis sex Female:diagnosisUC sexFemale:diagnosisUC -0.503 0.341 NA NA NA LM 1530 842 0.000708 0.00225
Roseburia_intestinalis sex Female:diagnosisUC sexFemale:diagnosisUC 0.561 0.166 0.000708 NA 0.00219 logistic 1530 842 0.000708 0.00225
Coprococcus_comes sex Male:diagnosisUC sexMale:diagnosisUC 0.518 0.278 NA NA NA LM 1530 759 0.000735 0.00232
Coprococcus_comes sex Male:diagnosisUC sexMale:diagnosisUC 0.662 0.196 0.000735 NA 0.00227 logistic 1530 759 0.000735 0.00232
Ruminococcus_torques sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.595 0.254 NA NA NA LM 1530 1090 0.000767 0.00242
Ruminococcus_torques sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.703 0.209 0.000767 NA 0.00236 logistic 1530 1090 0.000767 0.00242
Lachnospira_eligens sex Female:diagnosisCD sexFemale:diagnosisCD -0.487 0.276 NA NA NA LM 1530 929 0.00078 0.00245
Lachnospira_eligens sex Female:diagnosisCD sexFemale:diagnosisCD 0.536 0.16 0.00078 NA 0.00239 logistic 1530 929 0.00078 0.00245
Blautia_faecis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.152 0.242 1 NA 1 LM 1530 1120 0.000785 0.00246
Blautia_faecis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.747 0.211 0.000392 NA 0.0013 logistic 1530 1120 0.000785 0.00246
Roseburia_intestinalis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.27 0.37 NA NA NA LM 1530 842 0.00088 0.00273
Roseburia_intestinalis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.602 0.181 0.00088 NA 0.00267 logistic 1530 842 0.00088 0.00273
Phascolarctobacterium_faecium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1 0.336 NA NA NA LM 1530 503 0.000894 0.00276
Phascolarctobacterium_faecium sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.629 0.189 0.000894 NA 0.0027 logistic 1530 503 0.000894 0.00276
Paraprevotella_clara sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.979 0.677 NA NA NA LM 1530 178 0.000933 0.00286
Paraprevotella_clara sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.833 0.252 0.000933 NA 0.0028 logistic 1530 178 0.000933 0.00286
Sutterella_wadsworthensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.39 0.313 NA NA NA LM 1530 536 0.000939 0.00287
Sutterella_wadsworthensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.658 0.199 0.000939 NA 0.00281 logistic 1530 536 0.000939 0.00287
Prevotella_marseillensis sex Male:diagnosisUC sexMale:diagnosisUC -0.968 4.5 NA NA NA LM 1530 18 0.000961 0.00293
Prevotella_marseillensis sex Male:diagnosisUC sexMale:diagnosisUC 1.8 0.544 0.000961 NA 0.00287 logistic 1530 18 0.000961 0.00293
Ruminococcus_bicirculans sex Male:diagnosisUC sexMale:diagnosisUC -0.0431 0.377 1 NA 1 LM 1530 678 0.000986 0.00299
Ruminococcus_bicirculans sex Male:diagnosisUC sexMale:diagnosisUC 0.689 0.198 0.000493 NA 0.00161 logistic 1530 678 0.000986 0.00299
Akkermansia_muciniphila sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.54 0.414 NA NA NA LM 1530 407 0.000994 0.00301
Akkermansia_muciniphila sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.607 0.184 0.000994 NA 0.00295 logistic 1530 407 0.000994 0.00301
Eubacterium_siraeum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 4.8 0.479 NA NA NA LM 1530 565 0.00107 0.00323
Eubacterium_siraeum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.627 0.192 0.00107 NA 0.00316 logistic 1530 565 0.00107 0.00323
Clostridiales_bacterium sex Female:diagnosisUC sexFemale:diagnosisUC 1.3 0.245 NA NA NA LM 1530 985 0.00113 0.00339
Clostridiales_bacterium sex Female:diagnosisUC sexFemale:diagnosisUC 0.563 0.173 0.00113 NA 0.00332 logistic 1530 985 0.00113 0.00339
Bacteroides_ovatus sex Female:diagnosisUC sexFemale:diagnosisUC 0.912 0.231 NA NA NA LM 1530 1180 0.00123 0.00365
Bacteroides_ovatus sex Female:diagnosisUC sexFemale:diagnosisUC 0.651 0.202 0.00123 NA 0.00357 logistic 1530 1180 0.00123 0.00365
GGB3746_SGB5089 sex Female:diagnosisCD sexFemale:diagnosisCD 0.926 0.334 NA NA NA LM 1530 651 0.00128 0.00379
GGB3746_SGB5089 sex Female:diagnosisCD sexFemale:diagnosisCD 0.541 0.168 0.00128 NA 0.00371 logistic 1530 651 0.00128 0.00379
GGB3267_SGB4317 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.63 1.59 NA NA NA LM 1530 54 0.00129 0.0038
GGB3267_SGB4317 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 2.08 0.647 0.00129 NA 0.00372 logistic 1530 54 0.00129 0.0038
GGB3267_SGB4317 sex Male:diagnosisUC sexMale:diagnosisUC 1.79 1.62 NA NA NA LM 1530 54 0.00131 0.00383
GGB3267_SGB4317 sex Male:diagnosisUC sexMale:diagnosisUC 2.13 0.664 0.00131 NA 0.00376 logistic 1530 54 0.00131 0.00383
GGB1266_SGB1699 sex Female:diagnosisUC sexFemale:diagnosisUC 6.5 1.06 NA NA NA LM 1530 84 0.00136 0.00399
GGB1266_SGB1699 sex Female:diagnosisUC sexFemale:diagnosisUC 1.51 0.472 0.00136 NA 0.00391 logistic 1530 84 0.00136 0.00399
Clostridium_sp_AM49_4BH sex Female:diagnosisUC sexFemale:diagnosisUC 1.38 0.527 NA NA NA LM 1530 344 0.00138 0.00403
Clostridium_sp_AM49_4BH sex Female:diagnosisUC sexFemale:diagnosisUC 0.735 0.23 0.00138 NA 0.00395 logistic 1530 344 0.00138 0.00403
Hungatella_hathewayi sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.905 0.462 NA NA NA LM 1530 451 0.00139 0.00403
Hungatella_hathewayi sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.604 0.189 0.00139 NA 0.00395 logistic 1530 451 0.00139 0.00403
Ruminococcus_bromii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.348 0.35 NA NA NA LM 1530 429 0.00143 0.00416
Ruminococcus_bromii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.596 0.187 0.00143 NA 0.00407 logistic 1530 429 0.00143 0.00416
Rikenellaceae_bacterium sex Female:diagnosisUC sexFemale:diagnosisUC 0.619 3.32 NA NA NA LM 1530 67 0.00147 0.00424
Rikenellaceae_bacterium sex Female:diagnosisUC sexFemale:diagnosisUC 2.37 0.745 0.00147 NA 0.00415 logistic 1530 67 0.00147 0.00424
Bacteroides_thetaiotaomicron sex Male:diagnosisUC sexMale:diagnosisUC -0.658 0.345 NA NA NA LM 1530 1060 0.00153 0.00439
Bacteroides_thetaiotaomicron sex Male:diagnosisUC sexMale:diagnosisUC 0.694 0.219 0.00153 NA 0.00429 logistic 1530 1060 0.00153 0.00439
Dysosmobacter_welbionis sex Female:diagnosisUC sexFemale:diagnosisUC 0.814 0.186 NA NA NA LM 1530 1190 0.00153 0.00439
Dysosmobacter_welbionis sex Female:diagnosisUC sexFemale:diagnosisUC 0.668 0.211 0.00153 NA 0.00429 logistic 1530 1190 0.00153 0.00439
Bacteroides_ovatus sex Male:diagnosisUC sexMale:diagnosisUC 0.452 0.268 NA NA NA LM 1530 1180 0.00159 0.00455
Bacteroides_ovatus sex Male:diagnosisUC sexMale:diagnosisUC 0.789 0.25 0.00159 NA 0.00444 logistic 1530 1180 0.00159 0.00455
Anaerostipes_hadrus sex Female:diagnosisCD sexFemale:diagnosisCD -0.321 0.212 NA NA NA LM 1530 1130 0.00164 0.00466
Anaerostipes_hadrus sex Female:diagnosisCD sexFemale:diagnosisCD 0.565 0.18 0.00164 NA 0.00455 logistic 1530 1130 0.00164 0.00466
Bacteroides_caccae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.41 0.254 NA NA NA LM 1530 958 0.00165 0.00469
Bacteroides_caccae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.582 0.185 0.00165 NA 0.00458 logistic 1530 958 0.00165 0.00469
Bacteroides_fragilis sex Female:diagnosisUC sexFemale:diagnosisUC -0.727 0.343 NA NA NA LM 1530 787 0.0017 0.00479
Prevotella_copri_clade_C sex Female:diagnosisCD sexFemale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 16 0.00171 0.00479
Bacteroides_fragilis sex Female:diagnosisUC sexFemale:diagnosisUC -0.517 0.165 0.0017 NA 0.00468 logistic 1530 787 0.0017 0.00479
Prevotella_copri_clade_C sex Female:diagnosisCD sexFemale:diagnosisCD 3.11 0.992 0.00171 NA 0.00468 logistic 1530 16 0.00171 0.00479
Blautia_obeum sex Female:diagnosisUC sexFemale:diagnosisUC 1.03 0.261 NA NA NA LM 1530 899 0.00174 0.00489
Blautia_obeum sex Female:diagnosisUC sexFemale:diagnosisUC 0.532 0.17 0.00174 NA 0.00478 logistic 1530 899 0.00174 0.00489
Blautia_faecis sex Female:diagnosisCD sexFemale:diagnosisCD 0.412 0.217 1 NA 1 LM 1530 1120 0.00178 0.00498
Blautia_faecis sex Female:diagnosisCD sexFemale:diagnosisCD 0.582 0.175 0.000891 NA 0.0027 logistic 1530 1120 0.00178 0.00498
Lachnospira_pectinoschiza sex Female:diagnosisUC sexFemale:diagnosisUC 0.863 0.352 NA NA NA LM 1530 500 0.00195 0.00542
Lachnospira_pectinoschiza sex Female:diagnosisUC sexFemale:diagnosisUC 0.535 0.173 0.00195 NA 0.00531 logistic 1530 500 0.00195 0.00542
Alistipes_putredinis sex Female:diagnosisCD sexFemale:diagnosisCD 1.58 0.247 NA NA NA LM 1530 873 0.00199 0.00549
Roseburia_faecis sex Female:diagnosisCD sexFemale:diagnosisCD -0.41 0.272 NA NA NA LM 1530 922 0.00198 0.00549
Alistipes_putredinis sex Female:diagnosisCD sexFemale:diagnosisCD 0.492 0.159 0.00199 NA 0.00538 logistic 1530 873 0.00199 0.00549
Roseburia_faecis sex Female:diagnosisCD sexFemale:diagnosisCD 0.512 0.166 0.00198 NA 0.00538 logistic 1530 922 0.00198 0.00549
Butyrivibrio_crossotus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 6.44 1.57 NA NA NA LM 1530 43 0.00215 0.00591
Butyrivibrio_crossotus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 3.06 0.996 0.00215 NA 0.00579 logistic 1530 43 0.00215 0.00591
Rikenellaceae_bacterium sex Female:diagnosisCD sexFemale:diagnosisCD -0.82 3.22 NA NA NA LM 1530 67 0.00217 0.00594
Rikenellaceae_bacterium sex Female:diagnosisCD sexFemale:diagnosisCD 2.27 0.742 0.00217 NA 0.00583 logistic 1530 67 0.00217 0.00594
Lacrimispora_celerecrescens sex Male:diagnosisUC sexMale:diagnosisUC 0.668 0.284 NA NA NA LM 1530 756 0.0024 0.00652
Lacrimispora_celerecrescens sex Male:diagnosisUC sexMale:diagnosisUC 0.594 0.196 0.0024 NA 0.0064 logistic 1530 756 0.0024 0.00652
GGB3267_SGB4317 sex Female:diagnosisUC sexFemale:diagnosisUC 2.12 1.67 NA NA NA LM 1530 54 0.00256 0.00693
GGB3267_SGB4317 sex Female:diagnosisUC sexFemale:diagnosisUC 1.93 0.64 0.00256 NA 0.00678 logistic 1530 54 0.00256 0.00693
Roseburia_intestinalis sex Male:diagnosisUC sexMale:diagnosisUC -0.54 0.393 NA NA NA LM 1530 842 0.00263 0.00708
Roseburia_intestinalis sex Male:diagnosisUC sexMale:diagnosisUC 0.586 0.195 0.00263 NA 0.00693 logistic 1530 842 0.00263 0.00708
Flavonifractor_plautii sex Female:diagnosisUC sexFemale:diagnosisUC -0.109 0.211 NA NA NA LM 1530 1220 0.00267 0.00717
Flavonifractor_plautii sex Female:diagnosisUC sexFemale:diagnosisUC 0.686 0.228 0.00267 NA 0.00699 logistic 1530 1220 0.00267 0.00717
Blautia_obeum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.551 0.272 NA NA NA LM 1530 899 0.00269 0.00723
Blautia_obeum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.561 0.187 0.00269 NA 0.00703 logistic 1530 899 0.00269 0.00723
Collinsella_aerofaciens sex Male:diagnosisUC sexMale:diagnosisUC 0.964 0.34 NA NA NA LM 1530 698 0.00273 0.0073
Collinsella_aerofaciens sex Male:diagnosisUC sexMale:diagnosisUC 0.577 0.193 0.00273 NA 0.0071 logistic 1530 698 0.00273 0.0073
Alistipes_putredinis sex Female:diagnosisUC sexFemale:diagnosisUC 0.337 0.295 1 NA 1 LM 1530 873 0.00277 0.00739
Alistipes_putredinis sex Female:diagnosisUC sexFemale:diagnosisUC -0.534 0.167 0.00138 NA 0.00395 logistic 1530 873 0.00277 0.00739
Bacteroides_intestinalis sex Male:diagnosisUC sexMale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 158 0.00279 0.00745
Bacteroides_intestinalis sex Male:diagnosisUC sexMale:diagnosisUC -4.39 1.47 0.00279 NA 0.00726 logistic 1530 158 0.00279 0.00745
Lacrimispora_celerecrescens sex Female:diagnosisUC sexFemale:diagnosisUC 0.591 0.247 NA NA NA LM 1530 756 0.00301 0.00799
Lacrimispora_celerecrescens sex Female:diagnosisUC sexFemale:diagnosisUC 0.491 0.166 0.00301 NA 0.00779 logistic 1530 756 0.00301 0.00799
Bacteroides_intestinalis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 158 0.00334 0.00879
Bacteroides_intestinalis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -3.99 1.36 0.00334 NA 0.00859 logistic 1530 158 0.00334 0.00879
Clostridium_sp_AF36_4 sex Female:diagnosisCD sexFemale:diagnosisCD 0.189 0.309 1 NA 1 LM 1530 568 0.00341 0.00891
Phocaeicola_vulgatus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.35 0.335 NA NA NA LM 1530 1290 0.0034 0.00891
Clostridium_sp_AF36_4 sex Female:diagnosisCD sexFemale:diagnosisCD 0.543 0.173 0.00171 NA 0.00468 logistic 1530 568 0.00341 0.00891
Phocaeicola_vulgatus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.73 0.249 0.0034 NA 0.00871 logistic 1530 1290 0.0034 0.00891
Ruthenibacterium_lactatiformans sex Female:diagnosisCD sexFemale:diagnosisCD 0.653 0.288 NA NA NA LM 1530 797 0.0037 0.00962
Ruthenibacterium_lactatiformans sex Female:diagnosisCD sexFemale:diagnosisCD 0.464 0.16 0.0037 NA 0.0094 logistic 1530 797 0.0037 0.00962
Phocaeicola_vulgatus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.51 0.343 NA NA NA LM 1530 1290 0.00386 0.01
Phocaeicola_vulgatus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.734 0.254 0.00386 NA 0.00978 logistic 1530 1290 0.00386 0.01
Lactobacillus_acidophilus sex Female:diagnosisUC sexFemale:diagnosisUC -5.16 2.54 NA NA NA LM 1530 26 0.00418 0.0108
Lactobacillus_acidophilus sex Female:diagnosisUC sexFemale:diagnosisUC -1.65 0.575 0.00418 NA 0.0105 logistic 1530 26 0.00418 0.0108
Ruminococcus_sp_BSD2780120874_150323_B10 sex Female:diagnosisUC sexFemale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 90 0.0043 0.0111
Ruminococcus_sp_BSD2780120874_150323_B10 sex Female:diagnosisUC sexFemale:diagnosisUC -3.24 1.13 0.0043 NA 0.0108 logistic 1530 90 0.0043 0.0111
Bacteroides_eggerthii sex Female:diagnosisCD sexFemale:diagnosisCD 0.613 0.931 NA NA NA LM 1530 409 0.00442 0.0114
Bacteroides_eggerthii sex Female:diagnosisCD sexFemale:diagnosisCD -0.623 0.219 0.00442 NA 0.011 logistic 1530 409 0.00442 0.0114
Lachnospira_sp_NSJ_43 sex Female:diagnosisUC sexFemale:diagnosisUC -0.709 0.664 NA NA NA LM 1530 296 0.00443 0.0114
Lachnospira_sp_NSJ_43 sex Female:diagnosisUC sexFemale:diagnosisUC 0.761 0.267 0.00443 NA 0.0111 logistic 1530 296 0.00443 0.0114
GGB781_SGB1024 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 18 0.00446 0.0114
GGB781_SGB1024 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.44 0.857 0.00446 NA 0.0111 logistic 1530 18 0.00446 0.0114
Clostridium_sp_1001270H_150608_G6 sex Female:diagnosisUC sexFemale:diagnosisUC -2.97 2.01 NA NA NA LM 1530 141 0.00455 0.0116
Clostridium_sp_1001270H_150608_G6 sex Female:diagnosisUC sexFemale:diagnosisUC 1.79 0.631 0.00455 NA 0.0113 logistic 1530 141 0.00455 0.0116
Fusicatenibacter_saccharivorans sex Female:diagnosisCD sexFemale:diagnosisCD 0.539 0.201 NA NA NA LM 1530 1120 0.00463 0.0118
Fusicatenibacter_saccharivorans sex Female:diagnosisCD sexFemale:diagnosisCD 0.512 0.181 0.00463 NA 0.0115 logistic 1530 1120 0.00463 0.0118
Ruthenibacterium_lactatiformans sex Female:diagnosisUC sexFemale:diagnosisUC 0.512 0.306 1 NA 1 LM 1530 797 0.00465 0.0118
Ruthenibacterium_lactatiformans sex Female:diagnosisUC sexFemale:diagnosisUC 0.509 0.167 0.00233 NA 0.00622 logistic 1530 797 0.00465 0.0118
GGB9453_SGB14844 sex Female:diagnosisCD sexFemale:diagnosisCD -0.579 0.625 NA NA NA LM 1530 222 0.00473 0.012
GGB9453_SGB14844 sex Female:diagnosisCD sexFemale:diagnosisCD 0.723 0.256 0.00473 NA 0.0117 logistic 1530 222 0.00473 0.012
Dysosmobacter_sp_BX15 sex Female:diagnosisUC sexFemale:diagnosisUC -1.01 0.287 NA NA NA LM 1530 621 0.00479 0.0121
Dysosmobacter_sp_BX15 sex Female:diagnosisUC sexFemale:diagnosisUC 0.49 0.174 0.00479 NA 0.0118 logistic 1530 621 0.00479 0.0121
Ruminococcus_torques sex Female:diagnosisUC sexFemale:diagnosisUC -0.292 0.239 NA NA NA LM 1530 1090 0.00513 0.0128
Ruminococcus_torques sex Female:diagnosisUC sexFemale:diagnosisUC 0.496 0.177 0.00513 NA 0.0125 logistic 1530 1090 0.00513 0.0128
Prevotella_copri_clade_B sex Female:diagnosisUC sexFemale:diagnosisUC -3.86 1.77 NA NA NA LM 1530 40 0.00516 0.0129
Prevotella_copri_clade_B sex Female:diagnosisUC sexFemale:diagnosisUC -1.82 0.65 0.00516 NA 0.0126 logistic 1530 40 0.00516 0.0129
GGB3304_SGB4367 sex Male:diagnosisUC sexMale:diagnosisUC 0.177 0.871 1 NA 1 LM 1530 155 0.0053 0.0131
GGB3304_SGB4367 sex Male:diagnosisUC sexMale:diagnosisUC 0.901 0.3 0.00265 NA 0.00696 logistic 1530 155 0.0053 0.0131
Prevotella_SGB48271 sex Male:diagnosisUC sexMale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.0058 0.0143
Prevotella_SGB48271 sex Male:diagnosisUC sexMale:diagnosisUC 2.89 1.05 0.0058 NA 0.0139 logistic 1530 6 0.0058 0.0143
Sutterella_wadsworthensis sex Male:diagnosisUC sexMale:diagnosisUC -1.26 0.341 NA NA NA LM 1530 536 0.00595 0.0146
Sutterella_wadsworthensis sex Male:diagnosisUC sexMale:diagnosisUC -0.588 0.214 0.00595 NA 0.0142 logistic 1530 536 0.00595 0.0146
Parasutterella_excrementihominis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.579 0.345 NA NA NA LM 1530 699 0.0065 0.016
Parasutterella_excrementihominis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.496 0.182 0.0065 NA 0.0155 logistic 1530 699 0.0065 0.016
Alistipes_SGB2313 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 5.02 0.952 NA NA NA LM 1530 73 0.00671 0.0164
Dorea_longicatena sex Female:diagnosisUC sexFemale:diagnosisUC 0.532 0.217 NA NA NA LM 1530 1020 0.0067 0.0164
Alistipes_SGB2313 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1 0.37 0.00671 NA 0.0159 logistic 1530 73 0.00671 0.0164
Dorea_longicatena sex Female:diagnosisUC sexFemale:diagnosisUC 0.468 0.173 0.0067 NA 0.0159 logistic 1530 1020 0.0067 0.0164
Faecalibacterium_SGB15346 sex Male:diagnosisUC sexMale:diagnosisUC 0.485 0.397 NA NA NA LM 1530 743 0.00705 0.0171
Faecalibacterium_SGB15346 sex Male:diagnosisUC sexMale:diagnosisUC -0.528 0.196 0.00705 NA 0.0167 logistic 1530 743 0.00705 0.0171
Bacteroides_ilei sex Male:diagnosisUC sexMale:diagnosisUC 27.5 14.6 NA NA NA LM 1530 17 0.00722 0.0175
Bacteroides_ilei sex Male:diagnosisUC sexMale:diagnosisUC 2.79 1.04 0.00722 NA 0.017 logistic 1530 17 0.00722 0.0175
Prevotella_copri_clade_B sex Female:diagnosisCD sexFemale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 40 0.00731 0.0177
Prevotella_copri_clade_B sex Female:diagnosisCD sexFemale:diagnosisCD -2.91 1.08 0.00731 NA 0.0172 logistic 1530 40 0.00731 0.0177
Prevotella_sp_885 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -5.68 2.88 NA NA NA LM 1530 69 0.00741 0.0178
Prevotella_sp_885 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.82 0.681 0.00741 NA 0.0173 logistic 1530 69 0.00741 0.0178
GGB781_SGB1024 sex Female:diagnosisUC sexFemale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 18 0.00746 0.0179
GGB781_SGB1024 sex Female:diagnosisUC sexFemale:diagnosisUC -3.09 1.16 0.00746 NA 0.0174 logistic 1530 18 0.00746 0.0179
Bacteroides_uniformis sex Male:diagnosisUC sexMale:diagnosisUC -1.32 0.265 NA NA NA LM 1530 1240 0.00752 0.018
Bacteroides_uniformis sex Male:diagnosisUC sexMale:diagnosisUC -0.608 0.227 0.00752 NA 0.0175 logistic 1530 1240 0.00752 0.018
Hungatella_hathewayi sex Female:diagnosisUC sexFemale:diagnosisUC -0.446 0.432 NA NA NA LM 1530 451 0.00789 0.0188
Phocaeicola_coprocola sex Male:diagnosisUC sexMale:diagnosisUC -0.604 2.22 NA NA NA LM 1530 101 0.00788 0.0188
Hungatella_hathewayi sex Female:diagnosisUC sexFemale:diagnosisUC 0.461 0.173 0.00789 NA 0.0183 logistic 1530 451 0.00789 0.0188
Phocaeicola_coprocola sex Male:diagnosisUC sexMale:diagnosisUC -1.53 0.574 0.00788 NA 0.0183 logistic 1530 101 0.00788 0.0188
Lactobacillus_acidophilus sex Female:diagnosisCD sexFemale:diagnosisCD -3.02 2.16 NA NA NA LM 1530 26 0.00792 0.0188
Lactobacillus_acidophilus sex Female:diagnosisCD sexFemale:diagnosisCD -1.37 0.517 0.00792 NA 0.0183 logistic 1530 26 0.00792 0.0188
GGB1543_SGB2126 sex Female:diagnosisCD sexFemale:diagnosisCD -1.45 4.34 NA NA NA LM 1530 42 0.00822 0.0194
GGB1543_SGB2126 sex Female:diagnosisCD sexFemale:diagnosisCD -2.14 0.808 0.00822 NA 0.0189 logistic 1530 42 0.00822 0.0194
Alistipes_dispar sex Male:diagnosisUC sexMale:diagnosisUC -0.65 2.35 NA NA NA LM 1530 83 0.0083 0.0196
Alistipes_dispar sex Male:diagnosisUC sexMale:diagnosisUC -2.29 0.869 0.0083 NA 0.0191 logistic 1530 83 0.0083 0.0196
Enterocloster_bolteae sex Female:diagnosisUC sexFemale:diagnosisUC -0.927 0.279 NA NA NA LM 1530 866 0.00836 0.0197
Enterocloster_bolteae sex Female:diagnosisUC sexFemale:diagnosisUC 0.454 0.172 0.00836 NA 0.0192 logistic 1530 866 0.00836 0.0197
Bacteroides_thetaiotaomicron sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.929 0.329 NA NA NA LM 1530 1060 0.00911 0.0212
Bacteroides_thetaiotaomicron sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.527 0.202 0.00911 NA 0.0206 logistic 1530 1060 0.00911 0.0212
Phocaeicola_coprocola sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 101 0.00989 0.0229
Phocaeicola_coprocola sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -3.51 1.36 0.00989 NA 0.0223 logistic 1530 101 0.00989 0.0229
Lachnospira_pectinoschiza sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.318 0.363 1 NA 1 LM 1530 500 0.0107 0.0247
Lachnospira_pectinoschiza sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.516 0.185 0.00536 NA 0.013 logistic 1530 500 0.0107 0.0247
Tyzzerella_nexilis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.393 0.558 1 NA 1 LM 1530 188 0.0108 0.0249
Tyzzerella_nexilis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.674 0.242 0.00542 NA 0.0132 logistic 1530 188 0.0108 0.0249
Veillonella_dispar sex Female:diagnosisCD sexFemale:diagnosisCD -1.18 0.428 NA NA NA LM 1530 526 0.0112 0.0254
Veillonella_dispar sex Female:diagnosisCD sexFemale:diagnosisCD -0.449 0.177 0.0112 NA 0.0251 logistic 1530 526 0.0112 0.0254
Ruminococcus_torques sex Female:diagnosisCD sexFemale:diagnosisCD 0.361 0.227 1 NA 1 LM 1530 1090 0.0112 0.0254
Ruminococcus_torques sex Female:diagnosisCD sexFemale:diagnosisCD 0.474 0.171 0.00562 NA 0.0135 logistic 1530 1090 0.0112 0.0254
GGB9453_SGB14844 sex Female:diagnosisUC sexFemale:diagnosisUC -0.939 0.64 NA NA NA LM 1530 222 0.0113 0.0257
GGB9453_SGB14844 sex Female:diagnosisUC sexFemale:diagnosisUC 0.666 0.263 0.0113 NA 0.0253 logistic 1530 222 0.0113 0.0257
Lactobacillus_acidophilus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 26 0.0114 0.0259
Lactobacillus_acidophilus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -3.25 1.28 0.0114 NA 0.0256 logistic 1530 26 0.0114 0.0259
Veillonella_parvula sex Female:diagnosisCD sexFemale:diagnosisCD -0.101 0.442 NA NA NA LM 1530 547 0.0129 0.029
Veillonella_parvula sex Female:diagnosisCD sexFemale:diagnosisCD -0.42 0.169 0.0129 NA 0.0285 logistic 1530 547 0.0129 0.029
Roseburia_intestinalis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0502 0.37 1 NA 1 LM 1530 842 0.013 0.0292
Roseburia_intestinalis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.498 0.183 0.00652 NA 0.0155 logistic 1530 842 0.013 0.0292
Roseburia_hominis sex Male:diagnosisUC sexMale:diagnosisUC 1.09 0.332 NA NA NA LM 1530 876 0.0134 0.03
Roseburia_hominis sex Male:diagnosisUC sexMale:diagnosisUC 0.487 0.197 0.0134 NA 0.0294 logistic 1530 876 0.0134 0.03
Lacrimispora_amygdalina sex Female:diagnosisUC sexFemale:diagnosisUC -0.132 0.237 NA NA NA LM 1530 865 0.0134 0.03
Lacrimispora_amygdalina sex Female:diagnosisUC sexFemale:diagnosisUC 0.423 0.171 0.0134 NA 0.0295 logistic 1530 865 0.0134 0.03
Coprococcus_eutactus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.947 0.792 NA NA NA LM 1530 177 0.0135 0.0303
Coprococcus_eutactus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.773 0.313 0.0135 NA 0.0297 logistic 1530 177 0.0135 0.0303
Blautia_wexlerae sex Male:diagnosisUC sexMale:diagnosisUC -0.483 0.242 NA NA NA LM 1530 1300 0.0139 0.0311
Blautia_wexlerae sex Male:diagnosisUC sexMale:diagnosisUC 0.706 0.287 0.0139 NA 0.0304 logistic 1530 1300 0.0139 0.0311
Roseburia_faecis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.229 0.303 1 NA 1 LM 1530 922 0.014 0.0313
Roseburia_faecis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.522 0.194 0.00704 NA 0.0167 logistic 1530 922 0.014 0.0313
Coprococcus_eutactus sex Male:diagnosisUC sexMale:diagnosisUC 1.37 0.971 NA NA NA LM 1530 177 0.0141 0.0314
Coprococcus_eutactus sex Male:diagnosisUC sexMale:diagnosisUC 0.777 0.317 0.0141 NA 0.0308 logistic 1530 177 0.0141 0.0314
Bacteroides_ilei sex Female:diagnosisCD sexFemale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 17 0.0144 0.0319
Bacteroides_ilei sex Female:diagnosisCD sexFemale:diagnosisCD 2.45 1 0.0144 NA 0.0313 logistic 1530 17 0.0144 0.0319
GGB781_SGB1024 sex Female:diagnosisCD sexFemale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 18 0.0144 0.032
GGB781_SGB1024 sex Female:diagnosisCD sexFemale:diagnosisCD -1.65 0.674 0.0144 NA 0.0314 logistic 1530 18 0.0144 0.032
Paraprevotella_clara sex Female:diagnosisUC sexFemale:diagnosisUC -1.2 1.13 NA NA NA LM 1530 178 0.0146 0.0322
Paraprevotella_clara sex Female:diagnosisUC sexFemale:diagnosisUC -0.877 0.359 0.0146 NA 0.0316 logistic 1530 178 0.0146 0.0322
Akkermansia_muciniphila sex Male:diagnosisUC sexMale:diagnosisUC 2.73 0.662 NA NA NA LM 1530 407 0.0148 0.0327
Akkermansia_muciniphila sex Male:diagnosisUC sexMale:diagnosisUC -0.566 0.232 0.0148 NA 0.032 logistic 1530 407 0.0148 0.0327
Firmicutes_bacterium_AF16_15 sex Female:diagnosisUC sexFemale:diagnosisUC -0.699 0.323 NA NA NA LM 1530 827 0.015 0.0328
GGB3175_SGB4191 sex Female:diagnosisUC sexFemale:diagnosisUC -0.0574 1.27 NA NA NA LM 1530 154 0.015 0.0328
Firmicutes_bacterium_AF16_15 sex Female:diagnosisUC sexFemale:diagnosisUC -0.417 0.171 0.015 NA 0.0322 logistic 1530 827 0.015 0.0328
GGB3175_SGB4191 sex Female:diagnosisUC sexFemale:diagnosisUC -1.08 0.445 0.015 NA 0.0322 logistic 1530 154 0.015 0.0328
Eubacterium_ventriosum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.1 0.401 NA NA NA LM 1530 520 0.0154 0.0338
Eubacterium_ventriosum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.468 0.193 0.0154 NA 0.0331 logistic 1530 520 0.0154 0.0338
Oscillospiraceae_bacterium sex Female:diagnosisUC sexFemale:diagnosisUC -0.739 2.71 NA NA NA LM 1530 81 0.0157 0.0342
Oscillospiraceae_bacterium sex Female:diagnosisUC sexFemale:diagnosisUC 1.55 0.643 0.0157 NA 0.0334 logistic 1530 81 0.0157 0.0342
Ruminococcus_bicirculans sex Female:diagnosisUC sexFemale:diagnosisUC -0.449 0.335 NA NA NA LM 1530 678 0.0157 0.0343
Ruminococcus_bicirculans sex Female:diagnosisUC sexFemale:diagnosisUC 0.409 0.17 0.0157 NA 0.0336 logistic 1530 678 0.0157 0.0343
Phascolarctobacterium_faecium sex Female:diagnosisUC sexFemale:diagnosisUC -0.0194 0.324 NA NA NA LM 1530 503 0.0163 0.0355
Phascolarctobacterium_faecium sex Female:diagnosisUC sexFemale:diagnosisUC 0.428 0.178 0.0163 NA 0.0347 logistic 1530 503 0.0163 0.0355
Blautia_faecis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.367 0.248 NA NA NA LM 1530 1120 0.017 0.037
Blautia_faecis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.49 0.206 0.017 NA 0.0361 logistic 1530 1120 0.017 0.037
Bacteroides_finegoldii sex Male:diagnosisUC sexMale:diagnosisUC -1.7 0.78 NA NA NA LM 1530 333 0.0172 0.0373
Bacteroides_ovatus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.903 0.276 NA NA NA LM 1530 1180 0.0173 0.0373
GGB3278_SGB4328 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.82 0.69 NA NA NA LM 1530 179 0.0173 0.0373
Bacteroides_finegoldii sex Male:diagnosisUC sexMale:diagnosisUC 0.621 0.261 0.0172 NA 0.0365 logistic 1530 333 0.0172 0.0373
Bacteroides_ovatus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.47 0.198 0.0173 NA 0.0365 logistic 1530 1180 0.0173 0.0373
GGB3278_SGB4328 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.658 0.276 0.0173 NA 0.0365 logistic 1530 179 0.0173 0.0373
Escherichia_coli sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.166 0.388 1 NA 1 LM 1530 707 0.0177 0.038
Escherichia_coli sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.476 0.182 0.00887 NA 0.0202 logistic 1530 707 0.0177 0.038
Bacteroides_mediterraneensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -7.27 17.1 NA NA NA LM 1530 13 0.0178 0.0382
Bacteroides_mediterraneensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.63 0.687 0.0178 NA 0.0374 logistic 1530 13 0.0178 0.0382
Ruminococcus_bromii sex Female:diagnosisUC sexFemale:diagnosisUC 0.127 0.433 1 NA 1 LM 1530 429 0.0179 0.0384
Ruminococcus_bromii sex Female:diagnosisUC sexFemale:diagnosisUC -0.512 0.196 0.00901 NA 0.0205 logistic 1530 429 0.0179 0.0384
Phocaeicola_vulgatus sex Female:diagnosisCD sexFemale:diagnosisCD 1.07 0.303 NA NA NA LM 1530 1290 0.018 0.0385
Phocaeicola_vulgatus sex Female:diagnosisCD sexFemale:diagnosisCD 0.468 0.198 0.018 NA 0.0377 logistic 1530 1290 0.018 0.0385
Faecalibacterium_SGB15315 sex Male:diagnosisUC sexMale:diagnosisUC -0.196 0.44 NA NA NA LM 1530 619 0.0181 0.0386
Faecalibacterium_SGB15315 sex Male:diagnosisUC sexMale:diagnosisUC 0.476 0.202 0.0181 NA 0.0379 logistic 1530 619 0.0181 0.0386
Bacteroides_faecis sex Female:diagnosisUC sexFemale:diagnosisUC 1.05 0.676 NA NA NA LM 1530 434 0.0181 0.0386
Bacteroides_faecis sex Female:diagnosisUC sexFemale:diagnosisUC -0.462 0.195 0.0181 NA 0.0379 logistic 1530 434 0.0181 0.0386
Parabacteroides_merdae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.38 0.276 NA NA NA LM 1530 826 0.0183 0.039
Parabacteroides_merdae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.428 0.181 0.0183 NA 0.0382 logistic 1530 826 0.0183 0.039
Barnesiella_intestinihominis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.7 0.409 NA NA NA LM 1530 431 0.0189 0.0401
Barnesiella_intestinihominis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.467 0.199 0.0189 NA 0.0394 logistic 1530 431 0.0189 0.0401
GGB3304_SGB4367 sex Female:diagnosisUC sexFemale:diagnosisUC -0.777 0.593 NA NA NA LM 1530 155 0.0205 0.0432
GGB3304_SGB4367 sex Female:diagnosisUC sexFemale:diagnosisUC 0.635 0.274 0.0205 NA 0.0423 logistic 1530 155 0.0205 0.0432
GGB1549_SGB2133 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 3.58 1.39 NA NA NA LM 1530 46 0.0209 0.044
GGB1549_SGB2133 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.22 0.528 0.0209 NA 0.043 logistic 1530 46 0.0209 0.044
Clostridium_sp_AT4 sex Female:diagnosisCD sexFemale:diagnosisCD 1.02 0.338 NA NA NA LM 1530 528 0.0244 0.0508
Clostridium_sp_AT4 sex Female:diagnosisCD sexFemale:diagnosisCD -0.379 0.169 0.0244 NA 0.0497 logistic 1530 528 0.0244 0.0508
Akkermansia_muciniphila sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.01 0.573 NA NA NA LM 1530 407 0.0249 0.0519
Akkermansia_muciniphila sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.483 0.215 0.0249 NA 0.0506 logistic 1530 407 0.0249 0.0519
Bacteroides_stercoris sex Female:diagnosisUC sexFemale:diagnosisUC 0.618 0.366 NA NA NA LM 1530 826 0.0258 0.0534
Bacteroides_stercoris sex Female:diagnosisUC sexFemale:diagnosisUC 0.362 0.162 0.0258 NA 0.0521 logistic 1530 826 0.0258 0.0534
Roseburia_faecis sex Female:diagnosisUC sexFemale:diagnosisUC 0.269 0.303 1 NA 1 LM 1530 922 0.0259 0.0536
Roseburia_faecis sex Female:diagnosisUC sexFemale:diagnosisUC -0.413 0.166 0.0131 NA 0.0288 logistic 1530 922 0.0259 0.0536
Collinsella_SGB14861 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.24 0.39 NA NA NA LM 1530 593 0.0266 0.0548
Collinsella_SGB14861 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.43 0.194 0.0266 NA 0.0534 logistic 1530 593 0.0266 0.0548
Bacteroides_xylanisolvens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.144 0.404 1 NA 1 LM 1530 959 0.0268 0.0551
Prevotella_copri_clade_B sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 4.42 2.71 NA NA NA LM 1530 40 0.0268 0.0551
Veillonella_dispar sex Female:diagnosisUC sexFemale:diagnosisUC 0.697 0.384 NA NA NA LM 1530 526 0.0268 0.0551
Bacteroides_xylanisolvens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.473 0.191 0.0135 NA 0.0296 logistic 1530 959 0.0268 0.0551
Prevotella_copri_clade_B sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.86 0.841 0.0268 NA 0.0537 logistic 1530 40 0.0268 0.0551
Veillonella_dispar sex Female:diagnosisUC sexFemale:diagnosisUC 0.382 0.173 0.0268 NA 0.0537 logistic 1530 526 0.0268 0.0551
Clostridium_sp_AT4 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.17 0.402 1 NA 1 LM 1530 528 0.0275 0.0562
Clostridium_sp_AT4 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.485 0.197 0.0138 NA 0.0303 logistic 1530 528 0.0275 0.0562
GGB1266_SGB1699 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 8.02 1.13 NA NA NA LM 1530 84 0.0276 0.0563
GGB1266_SGB1699 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.13 0.515 0.0276 NA 0.0548 logistic 1530 84 0.0276 0.0563
Flavonifractor_plautii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.523 0.23 NA NA NA LM 1530 1220 0.0288 0.0585
Flavonifractor_plautii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.608 0.278 0.0288 NA 0.0569 logistic 1530 1220 0.0288 0.0585
Phocaeicola_plebeius sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 127 0.03 0.0604
Phocaeicola_plebeius sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.97 1.37 0.03 NA 0.0589 logistic 1530 127 0.03 0.0604
GGB3175_SGB4191 sex Female:diagnosisCD sexFemale:diagnosisCD 2.05 0.77 NA NA NA LM 1530 154 0.0302 0.0608
GGB3175_SGB4191 sex Female:diagnosisCD sexFemale:diagnosisCD 0.61 0.281 0.0302 NA 0.0594 logistic 1530 154 0.0302 0.0608
Lachnospira_pectinoschiza sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.401 0.381 1 NA 1 LM 1530 500 0.0307 0.0616
Lachnospira_pectinoschiza sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.463 0.191 0.0155 NA 0.0331 logistic 1530 500 0.0307 0.0616
Lactobacillus_acidophilus sex Male:diagnosisUC sexMale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 26 0.0318 0.0635
Lactobacillus_acidophilus sex Male:diagnosisUC sexMale:diagnosisUC -3.17 1.48 0.0318 NA 0.0622 logistic 1530 26 0.0318 0.0635
Proteus_mirabilis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 100 0.0325 0.0649
Proteus_mirabilis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.72 1.27 0.0325 NA 0.0636 logistic 1530 100 0.0325 0.0649
GGB33469_SGB15236 sex Female:diagnosisUC sexFemale:diagnosisUC 2.52 0.608 NA NA NA LM 1530 293 0.0326 0.0651
GGB33469_SGB15236 sex Female:diagnosisUC sexFemale:diagnosisUC 0.579 0.271 0.0326 NA 0.0637 logistic 1530 293 0.0326 0.0651
Phocaeicola_sartorii sex Male:diagnosisUC sexMale:diagnosisUC -1.29 0.573 NA NA NA LM 1530 424 0.0329 0.0656
Phocaeicola_sartorii sex Male:diagnosisUC sexMale:diagnosisUC -0.544 0.255 0.0329 NA 0.0642 logistic 1530 424 0.0329 0.0656
Coprococcus_comes sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.05 0.299 NA NA NA LM 1530 759 0.034 0.0674
Coprococcus_comes sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.39 0.184 0.034 NA 0.0661 logistic 1530 759 0.034 0.0674
Lactobacillus_acidophilus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 26 0.0378 0.075
Lactobacillus_acidophilus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.85 1.37 0.0378 NA 0.0733 logistic 1530 26 0.0378 0.075
Blautia_faecis sex Male:diagnosisUC sexMale:diagnosisUC 0.686 0.272 NA NA NA LM 1530 1120 0.0381 0.0753
Blautia_faecis sex Male:diagnosisUC sexMale:diagnosisUC 0.436 0.21 0.0381 NA 0.0736 logistic 1530 1120 0.0381 0.0753
Collinsella_SGB14861 sex Female:diagnosisCD sexFemale:diagnosisCD 0.477 0.293 NA NA NA LM 1530 593 0.0383 0.0756
Collinsella_SGB14861 sex Female:diagnosisCD sexFemale:diagnosisCD 0.33 0.159 0.0383 NA 0.0739 logistic 1530 593 0.0383 0.0756
Tyzzerella_nexilis sex Female:diagnosisCD sexFemale:diagnosisCD 0.346 0.53 1 NA 1 LM 1530 188 0.0388 0.0763
Tyzzerella_nexilis sex Female:diagnosisCD sexFemale:diagnosisCD 0.528 0.226 0.0196 NA 0.0407 logistic 1530 188 0.0388 0.0763
Gemmiger_formicilis sex Female:diagnosisUC sexFemale:diagnosisUC 2.19 0.46 NA NA NA LM 1530 472 0.0389 0.0764
Gemmiger_formicilis sex Female:diagnosisUC sexFemale:diagnosisUC -0.436 0.211 0.0389 NA 0.0748 logistic 1530 472 0.0389 0.0764
Collinsella_aerofaciens sex Female:diagnosisCD sexFemale:diagnosisCD -0.788 0.285 NA NA NA LM 1530 698 0.0396 0.0776
Collinsella_aerofaciens sex Female:diagnosisCD sexFemale:diagnosisCD 0.325 0.158 0.0396 NA 0.0759 logistic 1530 698 0.0396 0.0776
Bacteroides_uniformis sex Female:diagnosisUC sexFemale:diagnosisUC 0.144 0.209 1 NA 1 LM 1530 1240 0.0408 0.0797
Bacteroides_uniformis sex Female:diagnosisUC sexFemale:diagnosisUC 0.567 0.245 0.0206 NA 0.0425 logistic 1530 1240 0.0408 0.0797
Bacteroides_salyersiae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 2.31 0.78 NA NA NA LM 1530 150 0.0431 0.0838
Bacteroides_salyersiae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.565 0.279 0.0431 NA 0.0817 logistic 1530 150 0.0431 0.0838
Phascolarctobacterium_faecium sex Male:diagnosisUC sexMale:diagnosisUC -0.555 0.469 NA NA NA LM 1530 503 0.0438 0.0849
Phascolarctobacterium_faecium sex Male:diagnosisUC sexMale:diagnosisUC -0.493 0.244 0.0438 NA 0.0827 logistic 1530 503 0.0438 0.0849
GGB6601_SGB9333 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 69 0.0447 0.0865
GGB6601_SGB9333 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.76 1.37 0.0447 NA 0.0842 logistic 1530 69 0.0447 0.0865
GGB16040_SGB9347 sex Female:diagnosisUC sexFemale:diagnosisUC 0.437 0.753 1 NA 1 LM 1530 114 0.0464 0.089
GGB16040_SGB9347 sex Female:diagnosisUC sexFemale:diagnosisUC 0.687 0.303 0.0235 NA 0.0479 logistic 1530 114 0.0464 0.089
Phascolarctobacterium_succinatutens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.08 0.76 NA NA NA LM 1530 125 0.0474 0.0908
Phascolarctobacterium_succinatutens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.739 0.373 0.0474 NA 0.0885 logistic 1530 125 0.0474 0.0908
GGB16040_SGB9347 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.404 0.979 NA NA NA LM 1530 114 0.0476 0.0912
GGB16040_SGB9347 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.766 0.387 0.0476 NA 0.089 logistic 1530 114 0.0476 0.0912
Phocaeicola_massiliensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.483 0.652 NA NA NA LM 1530 396 0.0484 0.0924
Phocaeicola_massiliensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.465 0.236 0.0484 NA 0.09 logistic 1530 396 0.0484 0.0924
Dysgonomonas_mossii sex Female:diagnosisUC sexFemale:diagnosisUC 1.85 3.22 NA NA NA LM 1530 31 0.0486 0.0926
Dysgonomonas_mossii sex Female:diagnosisUC sexFemale:diagnosisUC 2.07 1.05 0.0486 NA 0.0902 logistic 1530 31 0.0486 0.0926
Oscillibacter_sp_ER4 sex Female:diagnosisUC sexFemale:diagnosisUC 0.329 0.359 1 NA 1 LM 1530 458 0.0487 0.0926
Oscillibacter_sp_ER4 sex Female:diagnosisUC sexFemale:diagnosisUC -0.435 0.193 0.0247 NA 0.0502 logistic 1530 458 0.0487 0.0926
Clostridium_sp_AF36_4 sex Male:diagnosisUC sexMale:diagnosisUC 0.269 0.377 1 NA 1 LM 1530 568 0.0491 0.0932
Clostridium_sp_AF36_4 sex Male:diagnosisUC sexMale:diagnosisUC 0.468 0.209 0.0248 NA 0.0505 logistic 1530 568 0.0491 0.0932
GGB3304_SGB4367 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.19 1.18 1 NA 1 LM 1530 155 0.0522 0.0983
GGB3304_SGB4367 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.15 0.516 0.0264 NA 0.0531 logistic 1530 155 0.0522 0.0983
Blautia_obeum sex Male:diagnosisUC sexMale:diagnosisUC 0.326 0.311 1 NA 1 LM 1530 899 0.0531 0.0997
Blautia_obeum sex Male:diagnosisUC sexMale:diagnosisUC 0.438 0.198 0.0269 NA 0.0537 logistic 1530 899 0.0531 0.0997
Bacteroides_cellulosilyticus sex Male:diagnosisUC sexMale:diagnosisUC -2.04 0.617 NA NA NA LM 1530 433 0.0551 0.103
Gemmiger_formicilis sex Female:diagnosisCD sexFemale:diagnosisCD -0.543 0.35 NA NA NA LM 1530 472 0.0551 0.103
Bacteroides_cellulosilyticus sex Male:diagnosisUC sexMale:diagnosisUC -0.471 0.245 0.0551 NA 0.101 logistic 1530 433 0.0551 0.103
Gemmiger_formicilis sex Female:diagnosisCD sexFemale:diagnosisCD 0.336 0.175 0.0551 NA 0.101 logistic 1530 472 0.0551 0.103
GGB781_SGB1024 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 18 0.0588 0.11
GGB781_SGB1024 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.61 1.38 0.0588 NA 0.108 logistic 1530 18 0.0588 0.11
Waltera_intestinalis sex Female:diagnosisUC sexFemale:diagnosisUC 1.03 0.443 NA NA NA LM 1530 524 0.0593 0.11
Waltera_intestinalis sex Female:diagnosisUC sexFemale:diagnosisUC 0.331 0.176 0.0593 NA 0.108 logistic 1530 524 0.0593 0.11
GGB3278_SGB4328 sex Female:diagnosisUC sexFemale:diagnosisUC -0.975 0.701 NA NA NA LM 1530 179 0.0596 0.111
GGB3278_SGB4328 sex Female:diagnosisUC sexFemale:diagnosisUC 0.5 0.265 0.0596 NA 0.109 logistic 1530 179 0.0596 0.111
Bacteroides_salyersiae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.1 0.81 NA NA NA LM 1530 150 0.0606 0.112
Bacteroides_salyersiae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.605 0.323 0.0606 NA 0.11 logistic 1530 150 0.0606 0.112
GGB1549_SGB2133 sex Female:diagnosisCD sexFemale:diagnosisCD 4.22 1.11 NA NA NA LM 1530 46 0.0624 0.115
GGB1549_SGB2133 sex Female:diagnosisCD sexFemale:diagnosisCD 1.01 0.54 0.0624 NA 0.113 logistic 1530 46 0.0624 0.115
Veillonella_parvula sex Male:diagnosisUC sexMale:diagnosisUC -2.14 0.533 NA NA NA LM 1530 547 0.0652 0.12
Veillonella_parvula sex Male:diagnosisUC sexMale:diagnosisUC -0.378 0.205 0.0652 NA 0.117 logistic 1530 547 0.0652 0.12
Alistipes_dispar sex Female:diagnosisUC sexFemale:diagnosisUC 1.37 0.926 NA NA NA LM 1530 83 0.0655 0.121
Alistipes_dispar sex Female:diagnosisUC sexFemale:diagnosisUC -0.69 0.375 0.0655 NA 0.118 logistic 1530 83 0.0655 0.121
Veillonella_dispar sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.727 0.452 NA NA NA LM 1530 526 0.0681 0.125
Veillonella_dispar sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.345 0.189 0.0681 NA 0.122 logistic 1530 526 0.0681 0.125
Coprococcus_eutactus sex Female:diagnosisCD sexFemale:diagnosisCD 1.93 0.869 NA NA NA LM 1530 177 0.0684 0.125
Dorea_longicatena sex Male:diagnosisUC sexMale:diagnosisUC 1 0.26 NA NA NA LM 1530 1020 0.0683 0.125
Coprococcus_eutactus sex Female:diagnosisCD sexFemale:diagnosisCD -0.654 0.359 0.0684 NA 0.122 logistic 1530 177 0.0684 0.125
Dorea_longicatena sex Male:diagnosisUC sexMale:diagnosisUC 0.367 0.201 0.0683 NA 0.122 logistic 1530 1020 0.0683 0.125
Hungatella_hathewayi sex Female:diagnosisCD sexFemale:diagnosisCD 0.62 0.427 NA NA NA LM 1530 451 0.0708 0.129
Hungatella_hathewayi sex Female:diagnosisCD sexFemale:diagnosisCD 0.305 0.169 0.0708 NA 0.126 logistic 1530 451 0.0708 0.129
GGB58485_SGB80143 sex Female:diagnosisUC sexFemale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 14 0.072 0.131
GGB58485_SGB80143 sex Female:diagnosisUC sexFemale:diagnosisUC -2.12 1.18 0.072 NA 0.127 logistic 1530 14 0.072 0.131
Clostridiaceae_bacterium_Marseille_Q4149 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 181 0.0721 0.131
Clostridiaceae_bacterium_Marseille_Q4149 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.48 1.38 0.0721 NA 0.127 logistic 1530 181 0.0721 0.131
Anaerostipes_hadrus sex Female:diagnosisUC sexFemale:diagnosisUC 0.00404 0.221 NA NA NA LM 1530 1130 0.0726 0.132
Phascolarctobacterium_succinatutens sex Female:diagnosisUC sexFemale:diagnosisUC 2.44 0.88 NA NA NA LM 1530 125 0.0726 0.132
Ruminococcus_bicirculans sex Female:diagnosisCD sexFemale:diagnosisCD 0.115 0.33 1 NA 1 LM 1530 678 0.0727 0.132
Anaerostipes_hadrus sex Female:diagnosisUC sexFemale:diagnosisUC 0.325 0.181 0.0726 NA 0.128 logistic 1530 1130 0.0726 0.132
Phascolarctobacterium_succinatutens sex Female:diagnosisUC sexFemale:diagnosisUC 0.645 0.359 0.0726 NA 0.128 logistic 1530 125 0.0726 0.132
Ruminococcus_bicirculans sex Female:diagnosisCD sexFemale:diagnosisCD 0.344 0.165 0.0371 NA 0.0718 logistic 1530 678 0.0727 0.132
Faecalibacterium_SGB15315 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.68 0.412 NA NA NA LM 1530 619 0.0767 0.138
Faecalibacterium_SGB15315 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.331 0.187 0.0767 NA 0.135 logistic 1530 619 0.0767 0.138
Bacteroides_uniformis sex Female:diagnosisCD sexFemale:diagnosisCD -0.789 0.208 NA NA NA LM 1530 1240 0.0787 0.142
Bacteroides_uniformis sex Female:diagnosisCD sexFemale:diagnosisCD -0.349 0.198 0.0787 NA 0.138 logistic 1530 1240 0.0787 0.142
Alistipes_onderdonkii sex Female:diagnosisCD sexFemale:diagnosisCD 0.15 0.303 1 NA 1 LM 1530 831 0.0803 0.144
Alistipes_onderdonkii sex Female:diagnosisCD sexFemale:diagnosisCD 0.319 0.156 0.041 NA 0.0782 logistic 1530 831 0.0803 0.144
Dysosmobacter_sp_BX15 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.293 0.319 NA NA NA LM 1530 621 0.0806 0.144
Dysosmobacter_sp_BX15 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.336 0.192 0.0806 NA 0.141 logistic 1530 621 0.0806 0.144
Clostridium_sp_AF36_4 sex Female:diagnosisUC sexFemale:diagnosisUC -0.393 0.32 NA NA NA LM 1530 568 0.0865 0.154
Collinsella_aerofaciens sex Female:diagnosisUC sexFemale:diagnosisUC 1.18 0.298 NA NA NA LM 1530 698 0.0865 0.154
Clostridium_sp_AF36_4 sex Female:diagnosisUC sexFemale:diagnosisUC 0.308 0.179 0.0865 NA 0.15 logistic 1530 568 0.0865 0.154
Collinsella_aerofaciens sex Female:diagnosisUC sexFemale:diagnosisUC 0.282 0.165 0.0865 NA 0.15 logistic 1530 698 0.0865 0.154
Proteus_mirabilis sex Female:diagnosisCD sexFemale:diagnosisCD -4.65 0.895 NA NA NA LM 1530 100 0.0868 0.154
Proteus_mirabilis sex Female:diagnosisCD sexFemale:diagnosisCD 0.534 0.312 0.0868 NA 0.15 logistic 1530 100 0.0868 0.154
GGB3277_SGB4327 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.412 0.651 NA NA NA LM 1530 152 0.0877 0.155
GGB3277_SGB4327 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.488 0.286 0.0877 NA 0.151 logistic 1530 152 0.0877 0.155
GGB33512_SGB15201 sex Male:diagnosisUC sexMale:diagnosisUC -1.91 2.41 NA NA NA LM 1530 121 0.0884 0.156
GGB33512_SGB15201 sex Male:diagnosisUC sexMale:diagnosisUC 1.13 0.664 0.0884 NA 0.152 logistic 1530 121 0.0884 0.156
GGB58485_SGB80143 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 14 0.0887 0.156
GGB58485_SGB80143 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.24 1.32 0.0887 NA 0.152 logistic 1530 14 0.0887 0.156
Bacteroides_thetaiotaomicron sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.0747 0.319 1 NA 1 LM 1530 1060 0.0892 0.157
Bacteroides_thetaiotaomicron sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.409 0.205 0.0456 NA 0.0856 logistic 1530 1060 0.0892 0.157
Bacteroides_xylanisolvens sex Female:diagnosisCD sexFemale:diagnosisCD -0.421 0.347 NA NA NA LM 1530 959 0.0923 0.161
Bacteroides_xylanisolvens sex Female:diagnosisCD sexFemale:diagnosisCD -0.28 0.166 0.0923 NA 0.157 logistic 1530 959 0.0923 0.161
Ruminococcus_gnavus sex Female:diagnosisUC sexFemale:diagnosisUC -0.674 0.307 NA NA NA LM 1530 767 0.0929 0.162
Ruminococcus_gnavus sex Female:diagnosisUC sexFemale:diagnosisUC 0.276 0.164 0.0929 NA 0.158 logistic 1530 767 0.0929 0.162
Bifidobacterium_longum sex Female:diagnosisCD sexFemale:diagnosisCD 0.0835 0.294 1 NA 1 LM 1530 843 0.0944 0.164
Bifidobacterium_longum sex Female:diagnosisCD sexFemale:diagnosisCD -0.32 0.162 0.0484 NA 0.09 logistic 1530 843 0.0944 0.164
Alistipes_SGB2313 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 73 0.0952 0.165
Alistipes_SGB2313 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.31 1.39 0.0952 NA 0.161 logistic 1530 73 0.0952 0.165
Veillonella_parvula sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.788 0.43 NA NA NA LM 1530 547 0.0956 0.166
Veillonella_parvula sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.304 0.183 0.0956 NA 0.161 logistic 1530 547 0.0956 0.166
Haemophilus_parainfluenzae sex Female:diagnosisUC sexFemale:diagnosisUC 0.54 0.321 NA NA NA LM 1530 674 0.0965 0.167
Haemophilus_parainfluenzae sex Female:diagnosisUC sexFemale:diagnosisUC 0.277 0.167 0.0965 NA 0.163 logistic 1530 674 0.0965 0.167
Eubacterium_rectale sex Female:diagnosisCD sexFemale:diagnosisCD -0.805 0.206 NA NA NA LM 1530 1210 0.099 0.171
Eubacterium_rectale sex Female:diagnosisCD sexFemale:diagnosisCD -0.304 0.185 0.099 NA 0.167 logistic 1530 1210 0.099 0.171
Candidatus_Cibionibacter_quicibialis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.641 0.304 NA NA NA LM 1530 933 0.0992 0.171
Candidatus_Cibionibacter_quicibialis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.301 0.182 0.0992 NA 0.167 logistic 1530 933 0.0992 0.171
Clostridium_sp_AT4 sex Male:diagnosisUC sexMale:diagnosisUC 0.392 0.369 1 NA 1 LM 1530 528 0.102 0.175
Clostridium_sp_AT4 sex Male:diagnosisUC sexMale:diagnosisUC 0.38 0.196 0.0524 NA 0.0966 logistic 1530 528 0.102 0.175
Clostridiaceae_bacterium sex Female:diagnosisUC sexFemale:diagnosisUC 0.255 0.219 1 NA 1 LM 1530 1110 0.103 0.177
Clostridiaceae_bacterium sex Female:diagnosisUC sexFemale:diagnosisUC 0.343 0.177 0.0529 NA 0.0974 logistic 1530 1110 0.103 0.177
Blautia_wexlerae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.14 0.226 NA NA NA LM 1530 1300 0.103 0.177
Blautia_wexlerae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.47 0.288 0.103 NA 0.172 logistic 1530 1300 0.103 0.177
GGB9342_SGB14306 sex Female:diagnosisUC sexFemale:diagnosisUC -2.44 2.25 NA NA NA LM 1530 92 0.104 0.177
GGB9342_SGB14306 sex Female:diagnosisUC sexFemale:diagnosisUC 1.27 0.783 0.104 NA 0.173 logistic 1530 92 0.104 0.177
Clostridium_leptum sex Female:diagnosisCD sexFemale:diagnosisCD 0.574 0.332 NA NA NA LM 1530 652 0.107 0.182
Clostridium_leptum sex Female:diagnosisCD sexFemale:diagnosisCD 0.268 0.166 0.107 NA 0.177 logistic 1530 652 0.107 0.182
GGB51647_SGB4348 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.977 0.927 NA NA NA LM 1530 123 0.109 0.185
GGB51647_SGB4348 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.593 0.369 0.109 NA 0.18 logistic 1530 123 0.109 0.185
Dysosmobacter_welbionis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.973 0.198 NA NA NA LM 1530 1190 0.112 0.19
Haemophilus_parainfluenzae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.458 0.365 NA NA NA LM 1530 674 0.112 0.19
Phocaeicola_coprocola sex Female:diagnosisUC sexFemale:diagnosisUC -0.216 0.996 NA NA NA LM 1530 101 0.112 0.19
Dysosmobacter_welbionis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.363 0.228 0.112 NA 0.185 logistic 1530 1190 0.112 0.19
Haemophilus_parainfluenzae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.289 0.182 0.112 NA 0.185 logistic 1530 674 0.112 0.19
Phocaeicola_coprocola sex Female:diagnosisUC sexFemale:diagnosisUC 0.406 0.256 0.112 NA 0.185 logistic 1530 101 0.112 0.19
Prevotella_copri_clade_B sex Male:diagnosisUC sexMale:diagnosisUC 0.334 1.79 1 NA 1 LM 1530 40 0.113 0.191
Prevotella_copri_clade_B sex Male:diagnosisUC sexMale:diagnosisUC -1.3 0.686 0.0581 NA 0.107 logistic 1530 40 0.113 0.191
Lachnospira_sp_NSJ_43 sex Female:diagnosisCD sexFemale:diagnosisCD 0.0215 0.679 1 NA 1 LM 1530 296 0.114 0.192
Lachnospira_sp_NSJ_43 sex Female:diagnosisCD sexFemale:diagnosisCD 0.526 0.278 0.0586 NA 0.107 logistic 1530 296 0.114 0.192
Bacteroides_thetaiotaomicron sex Female:diagnosisCD sexFemale:diagnosisCD 0.302 0.291 1 NA 1 LM 1530 1060 0.116 0.195
Bacteroides_thetaiotaomicron sex Female:diagnosisCD sexFemale:diagnosisCD 0.322 0.171 0.0597 NA 0.109 logistic 1530 1060 0.116 0.195
Lacrimispora_celerecrescens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.763 0.271 NA NA NA LM 1530 756 0.117 0.196
Lacrimispora_celerecrescens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.286 0.182 0.117 NA 0.191 logistic 1530 756 0.117 0.196
Lacrimispora_celerecrescens sex Female:diagnosisCD sexFemale:diagnosisCD -0.285 0.26 NA NA NA LM 1530 756 0.117 0.197
Lacrimispora_celerecrescens sex Female:diagnosisCD sexFemale:diagnosisCD -0.252 0.16 0.117 NA 0.191 logistic 1530 756 0.117 0.197
Akkermansia_sp_KLE1798 sex Female:diagnosisCD sexFemale:diagnosisCD 5.35 1.13 NA NA NA LM 1530 70 0.117 0.197
Akkermansia_sp_KLE1798 sex Female:diagnosisCD sexFemale:diagnosisCD 0.745 0.476 0.117 NA 0.192 logistic 1530 70 0.117 0.197
Ruthenibacterium_lactatiformans sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.123 0.321 1 NA 1 LM 1530 797 0.119 0.2
Ruthenibacterium_lactatiformans sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.336 0.18 0.0615 NA 0.111 logistic 1530 797 0.119 0.2
Clostridium_symbiosum sex Female:diagnosisCD sexFemale:diagnosisCD -0.508 0.352 NA NA NA LM 1530 539 0.121 0.203
Clostridium_symbiosum sex Female:diagnosisCD sexFemale:diagnosisCD 0.254 0.164 0.121 NA 0.198 logistic 1530 539 0.121 0.203
Fusicatenibacter_saccharivorans sex Male:diagnosisUC sexMale:diagnosisUC 0.655 0.267 NA NA NA LM 1530 1120 0.123 0.205
Fusicatenibacter_saccharivorans sex Male:diagnosisUC sexMale:diagnosisUC -0.314 0.203 0.123 NA 0.2 logistic 1530 1120 0.123 0.205
Paraprevotella_clara sex Female:diagnosisCD sexFemale:diagnosisCD 0.275 0.676 1 NA 1 LM 1530 178 0.124 0.206
Paraprevotella_clara sex Female:diagnosisCD sexFemale:diagnosisCD 0.451 0.243 0.0638 NA 0.115 logistic 1530 178 0.124 0.206
Bifidobacterium_longum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.239 0.3 NA NA NA LM 1530 843 0.125 0.207
Bifidobacterium_longum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.296 0.193 0.125 NA 0.202 logistic 1530 843 0.125 0.207
Alistipes_SGB2313 sex Male:diagnosisUC sexMale:diagnosisUC -1.64 2.07 NA NA NA LM 1530 73 0.125 0.207
Alistipes_SGB2313 sex Male:diagnosisUC sexMale:diagnosisUC -1.12 0.727 0.125 NA 0.202 logistic 1530 73 0.125 0.207
Dysosmobacter_welbionis sex Female:diagnosisCD sexFemale:diagnosisCD 0.241 0.18 1 NA 1 LM 1530 1190 0.13 0.216
Dysosmobacter_welbionis sex Female:diagnosisCD sexFemale:diagnosisCD 0.351 0.192 0.0674 NA 0.121 logistic 1530 1190 0.13 0.216
Flavonifractor_plautii sex Female:diagnosisCD sexFemale:diagnosisCD -0.00434 0.205 1 NA 1 LM 1530 1220 0.132 0.219
Flavonifractor_plautii sex Female:diagnosisCD sexFemale:diagnosisCD 0.38 0.208 0.0684 NA 0.122 logistic 1530 1220 0.132 0.219
Dialister_invisus sex Female:diagnosisUC sexFemale:diagnosisUC -0.642 0.265 NA NA NA LM 1530 726 0.133 0.219
GGB3478_SGB14857 sex Female:diagnosisCD sexFemale:diagnosisCD 5.61 1.77 NA NA NA LM 1530 16 0.133 0.219
Dialister_invisus sex Female:diagnosisUC sexFemale:diagnosisUC -0.252 0.168 0.133 NA 0.213 logistic 1530 726 0.133 0.219
GGB3478_SGB14857 sex Female:diagnosisCD sexFemale:diagnosisCD 0.848 0.564 0.133 NA 0.213 logistic 1530 16 0.133 0.219
Bacteroides_xylanisolvens sex Male:diagnosisUC sexMale:diagnosisUC -2.36 0.433 NA NA NA LM 1530 959 0.133 0.22
Bacteroides_xylanisolvens sex Male:diagnosisUC sexMale:diagnosisUC -0.303 0.202 0.133 NA 0.214 logistic 1530 959 0.133 0.22
Prevotella_marseillensis sex Female:diagnosisCD sexFemale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 18 0.134 0.22
Prevotella_marseillensis sex Female:diagnosisCD sexFemale:diagnosisCD -1.71 1.14 0.134 NA 0.214 logistic 1530 18 0.134 0.22
GGB9480_SGB14874 sex Female:diagnosisUC sexFemale:diagnosisUC 0.854 0.439 NA NA NA LM 1530 332 0.135 0.221
GGB9480_SGB14874 sex Female:diagnosisUC sexFemale:diagnosisUC -0.323 0.216 0.135 NA 0.215 logistic 1530 332 0.135 0.221
Phocaeicola_plebeius sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 5.62 0.798 NA NA NA LM 1530 127 0.138 0.226
Phocaeicola_plebeius sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.476 0.321 0.138 NA 0.219 logistic 1530 127 0.138 0.226
Odoribacter_splanchnicus sex Male:diagnosisUC sexMale:diagnosisUC -0.629 0.253 NA NA NA LM 1530 757 0.14 0.229
Odoribacter_splanchnicus sex Male:diagnosisUC sexMale:diagnosisUC -0.283 0.192 0.14 NA 0.222 logistic 1530 757 0.14 0.229
GGB781_SGB1024 sex Male:diagnosisUC sexMale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 18 0.141 0.23
GGB781_SGB1024 sex Male:diagnosisUC sexMale:diagnosisUC -1.05 0.717 0.141 NA 0.224 logistic 1530 18 0.141 0.23
GGB6601_SGB9333 sex Female:diagnosisUC sexFemale:diagnosisUC 1.53 1.3 NA NA NA LM 1530 69 0.145 0.235
GGB6601_SGB9333 sex Female:diagnosisUC sexFemale:diagnosisUC -0.629 0.431 0.145 NA 0.229 logistic 1530 69 0.145 0.235
Sutterella_wadsworthensis sex Female:diagnosisUC sexFemale:diagnosisUC -1.32 0.271 NA NA NA LM 1530 536 0.15 0.242
Sutterella_wadsworthensis sex Female:diagnosisUC sexFemale:diagnosisUC -0.253 0.176 0.15 NA 0.236 logistic 1530 536 0.15 0.242
GGB9480_SGB14874 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.117 0.413 NA NA NA LM 1530 332 0.15 0.242
GGB9480_SGB14874 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.313 0.218 0.15 NA 0.236 logistic 1530 332 0.15 0.242
Dialister_invisus sex Male:diagnosisUC sexMale:diagnosisUC -0.469 0.308 NA NA NA LM 1530 726 0.151 0.243
Dialister_invisus sex Male:diagnosisUC sexMale:diagnosisUC -0.284 0.198 0.151 NA 0.237 logistic 1530 726 0.151 0.243
GGB1543_SGB2126 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 42 0.151 0.243
GGB1543_SGB2126 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2 1.39 0.151 NA 0.237 logistic 1530 42 0.151 0.243
Bacteroides_eggerthii sex Female:diagnosisUC sexFemale:diagnosisUC 1.65 0.809 NA NA NA LM 1530 409 0.153 0.245
Bacteroides_eggerthii sex Female:diagnosisUC sexFemale:diagnosisUC 0.284 0.199 0.153 NA 0.238 logistic 1530 409 0.153 0.245
Alistipes_dispar sex Female:diagnosisCD sexFemale:diagnosisCD 1.68 1.4 NA NA NA LM 1530 83 0.154 0.245
Bacteroides_intestinalis sex Female:diagnosisUC sexFemale:diagnosisUC 1.15 0.682 NA NA NA LM 1530 158 0.154 0.245
Clostridium_symbiosum sex Male:diagnosisUC sexMale:diagnosisUC -0.362 0.419 NA NA NA LM 1530 539 0.153 0.245
Phocaeicola_plebeius sex Female:diagnosisUC sexFemale:diagnosisUC 0.77 0.788 NA NA NA LM 1530 127 0.153 0.245
Alistipes_dispar sex Female:diagnosisCD sexFemale:diagnosisCD -0.48 0.336 0.154 NA 0.238 logistic 1530 83 0.154 0.245
Bacteroides_intestinalis sex Female:diagnosisUC sexFemale:diagnosisUC -0.34 0.238 0.154 NA 0.238 logistic 1530 158 0.154 0.245
Clostridium_symbiosum sex Male:diagnosisUC sexMale:diagnosisUC 0.286 0.2 0.153 NA 0.238 logistic 1530 539 0.153 0.245
Phocaeicola_plebeius sex Female:diagnosisUC sexFemale:diagnosisUC 0.436 0.305 0.153 NA 0.238 logistic 1530 127 0.153 0.245
Enterocloster_clostridioformis sex Female:diagnosisCD sexFemale:diagnosisCD 0.0658 0.429 1 NA 1 LM 1530 312 0.154 0.245
Enterocloster_clostridioformis sex Female:diagnosisCD sexFemale:diagnosisCD -0.318 0.182 0.0803 NA 0.141 logistic 1530 312 0.154 0.245
GGB33469_SGB15236 sex Male:diagnosisUC sexMale:diagnosisUC 0.785 0.881 NA NA NA LM 1530 293 0.156 0.247
GGB33469_SGB15236 sex Male:diagnosisUC sexMale:diagnosisUC 0.462 0.326 0.156 NA 0.241 logistic 1530 293 0.156 0.247
Prevotella_copri_clade_C sex Female:diagnosisUC sexFemale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 16 0.157 0.249
Prevotella_copri_clade_C sex Female:diagnosisUC sexFemale:diagnosisUC 1.6 1.13 0.157 NA 0.243 logistic 1530 16 0.157 0.249
GGB1543_SGB2126 sex Female:diagnosisUC sexFemale:diagnosisUC -2.03 2.36 NA NA NA LM 1530 42 0.161 0.254
GGB1543_SGB2126 sex Female:diagnosisUC sexFemale:diagnosisUC -0.766 0.546 0.161 NA 0.248 logistic 1530 42 0.161 0.254
Klebsiella_pneumoniae sex Female:diagnosisCD sexFemale:diagnosisCD -1.64 0.774 NA NA NA LM 1530 119 0.162 0.255
Phocaeicola_sartorii sex Female:diagnosisUC sexFemale:diagnosisUC -1.77 0.433 NA NA NA LM 1530 424 0.162 0.255
Klebsiella_pneumoniae sex Female:diagnosisCD sexFemale:diagnosisCD -0.351 0.251 0.162 NA 0.249 logistic 1530 119 0.162 0.255
Phocaeicola_sartorii sex Female:diagnosisUC sexFemale:diagnosisUC -0.281 0.201 0.162 NA 0.249 logistic 1530 424 0.162 0.255
GGB9480_SGB14874 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.16 0.381 NA NA NA LM 1530 332 0.164 0.259
GGB9480_SGB14874 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.289 0.208 0.164 NA 0.252 logistic 1530 332 0.164 0.259
Phocaeicola_sartorii sex Female:diagnosisCD sexFemale:diagnosisCD -1.27 0.416 NA NA NA LM 1530 424 0.165 0.259
Phocaeicola_sartorii sex Female:diagnosisCD sexFemale:diagnosisCD -0.261 0.188 0.165 NA 0.252 logistic 1530 424 0.165 0.259
Vescimonas_coprocola sex Female:diagnosisCD sexFemale:diagnosisCD -1.03 0.343 NA NA NA LM 1530 599 0.165 0.259
Vescimonas_coprocola sex Female:diagnosisCD sexFemale:diagnosisCD -0.239 0.172 0.165 NA 0.253 logistic 1530 599 0.165 0.259
Faecalibacterium_prausnitzii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.318 0.178 1 NA 1 LM 1530 1370 0.166 0.26
Faecalibacterium_prausnitzii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.53 0.31 0.0869 NA 0.15 logistic 1530 1370 0.166 0.26
Eubacterium_rectale sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.0761 0.237 1 NA 1 LM 1530 1210 0.169 0.263
Eubacterium_rectale sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.365 0.214 0.0883 NA 0.152 logistic 1530 1210 0.169 0.263
Clostridium_fessum sex Male:diagnosisUC sexMale:diagnosisUC -0.0606 0.292 1 NA 1 LM 1530 926 0.173 0.269
Clostridium_fessum sex Male:diagnosisUC sexMale:diagnosisUC -0.333 0.197 0.0904 NA 0.155 logistic 1530 926 0.173 0.269
Roseburia_sp_AF02_12 sex Female:diagnosisCD sexFemale:diagnosisCD 1.16 0.605 NA NA NA LM 1530 363 0.173 0.27
Roseburia_sp_AF02_12 sex Female:diagnosisCD sexFemale:diagnosisCD -0.305 0.224 0.173 NA 0.264 logistic 1530 363 0.173 0.27
Bacteroides_caecigallinarum sex Female:diagnosisUC sexFemale:diagnosisUC -15 6.44 NA NA NA LM 1530 21 0.174 0.27
Bacteroides_caecigallinarum sex Female:diagnosisUC sexFemale:diagnosisUC 1.15 0.849 0.174 NA 0.265 logistic 1530 21 0.174 0.27
Ruminococcus_sp_BSD2780120874_150323_B10 sex Female:diagnosisCD sexFemale:diagnosisCD 0.229 0.924 1 NA 1 LM 1530 90 0.174 0.271
Ruminococcus_sp_BSD2780120874_150323_B10 sex Female:diagnosisCD sexFemale:diagnosisCD 0.503 0.298 0.0914 NA 0.156 logistic 1530 90 0.174 0.271
Alistipes_communis sex Female:diagnosisCD sexFemale:diagnosisCD 1.44 0.302 NA NA NA LM 1530 407 0.178 0.276
Alistipes_communis sex Female:diagnosisCD sexFemale:diagnosisCD 0.235 0.175 0.178 NA 0.27 logistic 1530 407 0.178 0.276
Enterocloster_bolteae sex Female:diagnosisCD sexFemale:diagnosisCD 0.666 0.272 NA NA NA LM 1530 866 0.179 0.276
Enterocloster_bolteae sex Female:diagnosisCD sexFemale:diagnosisCD 0.217 0.162 0.179 NA 0.271 logistic 1530 866 0.179 0.276
Klebsiella_pneumoniae sex Male:diagnosisUC sexMale:diagnosisUC -1.58 1.06 NA NA NA LM 1530 119 0.18 0.278
Klebsiella_pneumoniae sex Male:diagnosisUC sexMale:diagnosisUC -0.443 0.331 0.18 NA 0.273 logistic 1530 119 0.18 0.278
Phocaeicola_dorei sex Female:diagnosisUC sexFemale:diagnosisUC 0.551 0.562 NA NA NA LM 1530 769 0.181 0.279
Phocaeicola_dorei sex Female:diagnosisUC sexFemale:diagnosisUC 0.231 0.173 0.181 NA 0.274 logistic 1530 769 0.181 0.279
GGB1543_SGB2126 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 5.55 1.91 NA NA NA LM 1530 42 0.182 0.28
GGB1543_SGB2126 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.574 0.429 0.182 NA 0.274 logistic 1530 42 0.182 0.28
Blautia_wexlerae sex Female:diagnosisUC sexFemale:diagnosisUC -0.381 0.209 NA NA NA LM 1530 1300 0.189 0.29
Hungatella_hathewayi sex Male:diagnosisUC sexMale:diagnosisUC 0.737 0.607 NA NA NA LM 1530 451 0.189 0.29
Blautia_wexlerae sex Female:diagnosisUC sexFemale:diagnosisUC 0.296 0.226 0.189 NA 0.283 logistic 1530 1300 0.189 0.29
Hungatella_hathewayi sex Male:diagnosisUC sexMale:diagnosisUC -0.297 0.226 0.189 NA 0.283 logistic 1530 451 0.189 0.29
GGB9453_SGB14844 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.15 0.825 NA NA NA LM 1530 222 0.19 0.29
GGB9453_SGB14844 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.447 0.341 0.19 NA 0.284 logistic 1530 222 0.19 0.29
GGB51647_SGB4348 sex Female:diagnosisCD sexFemale:diagnosisCD 2.24 0.869 NA NA NA LM 1530 123 0.19 0.29
GGB51647_SGB4348 sex Female:diagnosisCD sexFemale:diagnosisCD 0.448 0.342 0.19 NA 0.284 logistic 1530 123 0.19 0.29
GGB58485_SGB80143 sex Male:diagnosisUC sexMale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 14 0.192 0.293
GGB58485_SGB80143 sex Male:diagnosisUC sexMale:diagnosisUC -1.95 1.5 0.192 NA 0.286 logistic 1530 14 0.192 0.293
GGB3278_SGB4328 sex Male:diagnosisUC sexMale:diagnosisUC 0.287 1.19 1 NA 1 LM 1530 179 0.197 0.299
GGB28645_SGB41268 sex Female:diagnosisUC sexFemale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 3 0.197 0.299
GGB28645_SGB41268 sex Female:diagnosisUC sexFemale:diagnosisUC 1.42 1.1 0.197 NA 0.292 logistic 1530 3 0.197 0.299
GGB3278_SGB4328 sex Male:diagnosisUC sexMale:diagnosisUC -0.723 0.445 0.104 NA 0.173 logistic 1530 179 0.197 0.299
Haemophilus_parainfluenzae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.086 0.336 1 NA 1 LM 1530 674 0.199 0.301
Haemophilus_parainfluenzae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.297 0.183 0.105 NA 0.175 logistic 1530 674 0.199 0.301
Alistipes_onderdonkii sex Female:diagnosisUC sexFemale:diagnosisUC -0.659 0.34 NA NA NA LM 1530 831 0.202 0.305
Alistipes_onderdonkii sex Female:diagnosisUC sexFemale:diagnosisUC -0.209 0.164 0.202 NA 0.298 logistic 1530 831 0.202 0.305
Alistipes_communis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 2.37 0.348 NA NA NA LM 1530 407 0.204 0.307
Alistipes_communis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.254 0.2 0.204 NA 0.3 logistic 1530 407 0.204 0.307
Odoribacter_splanchnicus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.31 0.233 NA NA NA LM 1530 757 0.208 0.312
Odoribacter_splanchnicus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.227 0.18 0.208 NA 0.305 logistic 1530 757 0.208 0.312
Eubacterium_siraeum sex Female:diagnosisUC sexFemale:diagnosisUC 1.97 0.453 NA NA NA LM 1530 565 0.209 0.314
Eubacterium_siraeum sex Female:diagnosisUC sexFemale:diagnosisUC 0.223 0.178 0.209 NA 0.307 logistic 1530 565 0.209 0.314
Rikenellaceae_bacterium sex Male:diagnosisUC sexMale:diagnosisUC -3.88 3.82 NA NA NA LM 1530 67 0.21 0.315
Rikenellaceae_bacterium sex Male:diagnosisUC sexMale:diagnosisUC 1.18 0.944 0.21 NA 0.307 logistic 1530 67 0.21 0.315
Alistipes_shahii sex Male:diagnosisUC sexMale:diagnosisUC 0.371 0.286 1 NA 1 LM 1530 673 0.213 0.318
Alistipes_shahii sex Male:diagnosisUC sexMale:diagnosisUC 0.304 0.192 0.113 NA 0.185 logistic 1530 673 0.213 0.318
GGB9480_SGB14874 sex Male:diagnosisUC sexMale:diagnosisUC -0.808 0.534 NA NA NA LM 1530 332 0.214 0.319
GGB9480_SGB14874 sex Male:diagnosisUC sexMale:diagnosisUC -0.331 0.266 0.214 NA 0.311 logistic 1530 332 0.214 0.319
Bacteroides_fragilis sex Female:diagnosisCD sexFemale:diagnosisCD -0.151 0.32 NA NA NA LM 1530 787 0.216 0.321
Bacteroides_fragilis sex Female:diagnosisCD sexFemale:diagnosisCD -0.196 0.159 0.216 NA 0.314 logistic 1530 787 0.216 0.321
Phocaeicola_sartorii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -2.02 0.452 NA NA NA LM 1530 424 0.218 0.323
Phocaeicola_sartorii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.254 0.206 0.218 NA 0.316 logistic 1530 424 0.218 0.323
Akkermansia_sp_KLE1798 sex Male:diagnosisUC sexMale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 70 0.218 0.323
Akkermansia_sp_KLE1798 sex Male:diagnosisUC sexMale:diagnosisUC -1.84 1.5 0.218 NA 0.316 logistic 1530 70 0.218 0.323
Ruminococcus_sp_BSD2780120874_150323_B10 sex Male:diagnosisUC sexMale:diagnosisUC -5.56 1.98 NA NA NA LM 1530 90 0.221 0.327
Ruminococcus_sp_BSD2780120874_150323_B10 sex Male:diagnosisUC sexMale:diagnosisUC -0.597 0.488 0.221 NA 0.32 logistic 1530 90 0.221 0.327
Vescimonas_coprocola sex Male:diagnosisUC sexMale:diagnosisUC -1.25 0.432 NA NA NA LM 1530 599 0.228 0.336
Vescimonas_coprocola sex Male:diagnosisUC sexMale:diagnosisUC -0.258 0.214 0.228 NA 0.328 logistic 1530 599 0.228 0.336
Vescimonas_coprocola sex Female:diagnosisUC sexFemale:diagnosisUC -0.8 0.323 NA NA NA LM 1530 599 0.229 0.338
Vescimonas_coprocola sex Female:diagnosisUC sexFemale:diagnosisUC 0.208 0.173 0.229 NA 0.329 logistic 1530 599 0.229 0.338
Roseburia_faecis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.615 0.321 NA NA NA LM 1530 922 0.234 0.344
Roseburia_faecis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.222 0.187 0.234 NA 0.336 logistic 1530 922 0.234 0.344
Prevotella_copri_clade_A sex Female:diagnosisUC sexFemale:diagnosisUC 1.71 0.918 NA NA NA LM 1530 289 0.236 0.346
Prevotella_copri_clade_A sex Female:diagnosisUC sexFemale:diagnosisUC 0.255 0.215 0.236 NA 0.338 logistic 1530 289 0.236 0.346
Bacteroides_uniformis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.775 0.23 NA NA NA LM 1530 1240 0.238 0.348
Faecalibacterium_prausnitzii sex Female:diagnosisCD sexFemale:diagnosisCD 0.188 0.158 1 NA 1 LM 1530 1370 0.238 0.348
GGB9713_SGB15249 sex Male:diagnosisUC sexMale:diagnosisUC -0.0419 0.883 1 NA 1 LM 1530 329 0.237 0.348
Bacteroides_uniformis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.275 0.233 0.238 NA 0.34 logistic 1530 1240 0.238 0.348
Faecalibacterium_prausnitzii sex Female:diagnosisCD sexFemale:diagnosisCD 0.34 0.223 0.127 NA 0.205 logistic 1530 1370 0.238 0.348
GGB9713_SGB15249 sex Male:diagnosisUC sexMale:diagnosisUC -0.517 0.338 0.127 NA 0.205 logistic 1530 329 0.237 0.348
GGB3277_SGB4327 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.756 0.693 NA NA NA LM 1530 152 0.239 0.349
GGB3277_SGB4327 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.312 0.265 0.239 NA 0.342 logistic 1530 152 0.239 0.349
Ruminococcus_bromii sex Female:diagnosisCD sexFemale:diagnosisCD 0.319 0.384 1 NA 1 LM 1530 429 0.246 0.358
Ruminococcus_bromii sex Female:diagnosisCD sexFemale:diagnosisCD -0.278 0.185 0.132 NA 0.212 logistic 1530 429 0.246 0.358
GGB6601_SGB9333 sex Male:diagnosisUC sexMale:diagnosisUC 2.97 1.17 NA NA NA LM 1530 69 0.247 0.358
GGB6601_SGB9333 sex Male:diagnosisUC sexMale:diagnosisUC 0.466 0.402 0.247 NA 0.351 logistic 1530 69 0.247 0.358
Ruminococcus_bromii sex Male:diagnosisUC sexMale:diagnosisUC 1.71 0.522 NA NA NA LM 1530 429 0.251 0.364
Ruminococcus_bromii sex Male:diagnosisUC sexMale:diagnosisUC -0.263 0.229 0.251 NA 0.356 logistic 1530 429 0.251 0.364
Sutterella_wadsworthensis sex Female:diagnosisCD sexFemale:diagnosisCD -1.31 0.252 NA NA NA LM 1530 536 0.257 0.372
Sutterella_wadsworthensis sex Female:diagnosisCD sexFemale:diagnosisCD -0.187 0.165 0.257 NA 0.364 logistic 1530 536 0.257 0.372
Enterocloster_bolteae sex Male:diagnosisUC sexMale:diagnosisUC -0.509 0.356 NA NA NA LM 1530 866 0.259 0.375
Enterocloster_bolteae sex Male:diagnosisUC sexMale:diagnosisUC -0.218 0.193 0.259 NA 0.366 logistic 1530 866 0.259 0.375
Veillonella_dispar sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.24 0.41 NA NA NA LM 1530 526 0.261 0.376
Veillonella_dispar sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.21 0.186 0.261 NA 0.367 logistic 1530 526 0.261 0.376
GGB58485_SGB80143 sex Female:diagnosisCD sexFemale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 14 0.265 0.381
GGB58485_SGB80143 sex Female:diagnosisCD sexFemale:diagnosisCD -0.777 0.697 0.265 NA 0.372 logistic 1530 14 0.265 0.381
Bacteroides_cellulosilyticus sex Female:diagnosisCD sexFemale:diagnosisCD 0.854 0.462 NA NA NA LM 1530 433 0.27 0.388
Bacteroides_cellulosilyticus sex Female:diagnosisCD sexFemale:diagnosisCD -0.204 0.185 0.27 NA 0.379 logistic 1530 433 0.27 0.388
Klebsiella_pneumoniae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2.7 0.957 NA NA NA LM 1530 119 0.277 0.397
Klebsiella_pneumoniae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.337 0.31 0.277 NA 0.388 logistic 1530 119 0.277 0.397
Bacteroides_finegoldii sex Female:diagnosisCD sexFemale:diagnosisCD -1.72 0.698 NA NA NA LM 1530 333 0.278 0.397
Prevotella_marseillensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 18 0.278 0.397
Bacteroides_finegoldii sex Female:diagnosisCD sexFemale:diagnosisCD 0.242 0.223 0.278 NA 0.388 logistic 1530 333 0.278 0.397
Prevotella_marseillensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.53 1.42 0.278 NA 0.388 logistic 1530 18 0.278 0.397
Clostridiaceae_bacterium sex Male:diagnosisUC sexMale:diagnosisUC 0.445 0.262 NA NA NA LM 1530 1110 0.282 0.401
Clostridiaceae_bacterium sex Male:diagnosisUC sexMale:diagnosisUC 0.22 0.204 0.282 NA 0.391 logistic 1530 1110 0.282 0.401
Oscillospiraceae_bacterium sex Female:diagnosisCD sexFemale:diagnosisCD -0.771 2.77 NA NA NA LM 1530 81 0.298 0.422
Oscillospiraceae_bacterium sex Female:diagnosisCD sexFemale:diagnosisCD 0.738 0.709 0.298 NA 0.41 logistic 1530 81 0.298 0.422
Alistipes_finegoldii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.698 0.335 NA NA NA LM 1530 639 0.299 0.423
Bacteroides_caccae sex Female:diagnosisUC sexFemale:diagnosisUC 0.643 0.24 NA NA NA LM 1530 958 0.3 0.423
Alistipes_finegoldii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.188 0.181 0.299 NA 0.411 logistic 1530 639 0.299 0.423
Bacteroides_caccae sex Female:diagnosisUC sexFemale:diagnosisUC 0.169 0.163 0.3 NA 0.411 logistic 1530 958 0.3 0.423
Roseburia_sp_AF02_12 sex Male:diagnosisUC sexMale:diagnosisUC 0.0428 0.668 1 NA 1 LM 1530 363 0.302 0.426
Roseburia_sp_AF02_12 sex Male:diagnosisUC sexMale:diagnosisUC 0.336 0.242 0.165 NA 0.252 logistic 1530 363 0.302 0.426
Clostridium_fessum sex Female:diagnosisCD sexFemale:diagnosisCD 0.682 0.217 NA NA NA LM 1530 926 0.303 0.427
Clostridium_fessum sex Female:diagnosisCD sexFemale:diagnosisCD 0.166 0.161 0.303 NA 0.416 logistic 1530 926 0.303 0.427
Prevotella_sp_885 sex Male:diagnosisUC sexMale:diagnosisUC -2.73 1.32 NA NA NA LM 1530 69 0.304 0.427
Prevotella_sp_885 sex Male:diagnosisUC sexMale:diagnosisUC 0.37 0.359 0.304 NA 0.416 logistic 1530 69 0.304 0.427
Prevotella_copri_clade_E sex Male:diagnosisUC sexMale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 38 0.306 0.429
Prevotella_copri_clade_E sex Male:diagnosisUC sexMale:diagnosisUC 0.97 0.947 0.306 NA 0.418 logistic 1530 38 0.306 0.429
Clostridium_sp_AF34_10BH sex Female:diagnosisCD sexFemale:diagnosisCD 0.166 0.28 1 NA 1 LM 1530 960 0.31 0.434
Phocaeicola_dorei sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.08 0.649 NA NA NA LM 1530 769 0.31 0.434
Ruminococcus_sp_BSD2780120874_150323_B10 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.789 1.35 NA NA NA LM 1530 90 0.309 0.434
Clostridium_sp_AF34_10BH sex Female:diagnosisCD sexFemale:diagnosisCD -0.223 0.162 0.169 NA 0.258 logistic 1530 960 0.31 0.434
Phocaeicola_dorei sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.191 0.188 0.31 NA 0.423 logistic 1530 769 0.31 0.434
Ruminococcus_sp_BSD2780120874_150323_B10 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.328 0.323 0.309 NA 0.422 logistic 1530 90 0.309 0.434
GGB3746_SGB5089 sex Female:diagnosisUC sexFemale:diagnosisUC 0.922 0.355 NA NA NA LM 1530 651 0.312 0.436
GGB3746_SGB5089 sex Female:diagnosisUC sexFemale:diagnosisUC 0.175 0.174 0.312 NA 0.425 logistic 1530 651 0.312 0.436
GGB9708_SGB15234 sex Male:diagnosisUC sexMale:diagnosisUC 2.19 0.909 NA NA NA LM 1530 282 0.313 0.437
GGB9708_SGB15234 sex Male:diagnosisUC sexMale:diagnosisUC 0.301 0.299 0.313 NA 0.426 logistic 1530 282 0.313 0.437
Clostridium_sp_AM49_4BH sex Male:diagnosisUC sexMale:diagnosisUC 0.413 0.889 1 NA 1 LM 1530 344 0.318 0.443
GGB3478_SGB14857 sex Male:diagnosisUC sexMale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 16 0.319 0.443
Clostridium_sp_AM49_4BH sex Male:diagnosisUC sexMale:diagnosisUC -0.496 0.365 0.174 NA 0.265 logistic 1530 344 0.318 0.443
GGB3478_SGB14857 sex Male:diagnosisUC sexMale:diagnosisUC -1.53 1.53 0.319 NA 0.431 logistic 1530 16 0.319 0.443
GGB6601_SGB9333 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 4.21 1.22 NA NA NA LM 1530 69 0.32 0.444
GGB6601_SGB9333 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.355 0.357 0.32 NA 0.432 logistic 1530 69 0.32 0.444
Prevotella_copri_clade_C sex Male:diagnosisUC sexMale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 16 0.321 0.445
Prevotella_copri_clade_C sex Male:diagnosisUC sexMale:diagnosisUC 1.25 1.26 0.321 NA 0.433 logistic 1530 16 0.321 0.445
Prevotella_stercorea sex Male:diagnosisUC sexMale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 40 0.323 0.447
Prevotella_stercorea sex Male:diagnosisUC sexMale:diagnosisUC 0.936 0.947 0.323 NA 0.435 logistic 1530 40 0.323 0.447
GGB3267_SGB4317 sex Female:diagnosisCD sexFemale:diagnosisCD -1.74 1.81 NA NA NA LM 1530 54 0.329 0.455
GGB3267_SGB4317 sex Female:diagnosisCD sexFemale:diagnosisCD 0.714 0.731 0.329 NA 0.442 logistic 1530 54 0.329 0.455
Faecalibacterium_SGB15346 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.607 0.335 NA NA NA LM 1530 743 0.33 0.456
Faecalibacterium_SGB15346 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.177 0.182 0.33 NA 0.444 logistic 1530 743 0.33 0.456
Dysosmobacter_sp_BX15 sex Male:diagnosisUC sexMale:diagnosisUC -0.0459 0.357 1 NA 1 LM 1530 621 0.332 0.458
Dysosmobacter_sp_BX15 sex Male:diagnosisUC sexMale:diagnosisUC 0.276 0.207 0.183 NA 0.276 logistic 1530 621 0.332 0.458
Phocaeicola_massiliensis sex Female:diagnosisUC sexFemale:diagnosisUC -0.666 0.482 NA NA NA LM 1530 396 0.338 0.464
Phocaeicola_massiliensis sex Female:diagnosisUC sexFemale:diagnosisUC 0.179 0.187 0.338 NA 0.452 logistic 1530 396 0.338 0.464
Bacteroides_intestinalis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 2.01 0.696 NA NA NA LM 1530 158 0.339 0.465
Bacteroides_intestinalis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.239 0.25 0.339 NA 0.453 logistic 1530 158 0.339 0.465
GGB3304_SGB4367 sex Female:diagnosisCD sexFemale:diagnosisCD -2.41 0.711 NA NA NA LM 1530 155 0.34 0.466
GGB3304_SGB4367 sex Female:diagnosisCD sexFemale:diagnosisCD -0.313 0.328 0.34 NA 0.454 logistic 1530 155 0.34 0.466
Faecalibacterium_SGB15346 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.917 0.339 NA NA NA LM 1530 743 0.344 0.469
Faecalibacterium_SGB15346 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.168 0.177 0.344 NA 0.458 logistic 1530 743 0.344 0.469
Alistipes_dispar sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 2.64 1.21 NA NA NA LM 1530 83 0.345 0.47
Alistipes_dispar sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.431 0.457 0.345 NA 0.459 logistic 1530 83 0.345 0.47
Candidatus_Cibionibacter_quicibialis sex Female:diagnosisUC sexFemale:diagnosisUC 0.664 0.266 NA NA NA LM 1530 933 0.35 0.476
Candidatus_Cibionibacter_quicibialis sex Female:diagnosisUC sexFemale:diagnosisUC -0.155 0.165 0.35 NA 0.465 logistic 1530 933 0.35 0.476
Parasutterella_excrementihominis sex Female:diagnosisCD sexFemale:diagnosisCD 0.205 0.334 1 NA 1 LM 1530 699 0.351 0.476
Parasutterella_excrementihominis sex Female:diagnosisCD sexFemale:diagnosisCD -0.213 0.164 0.194 NA 0.289 logistic 1530 699 0.351 0.476
Phocaeicola_dorei sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.676 0.61 NA NA NA LM 1530 769 0.352 0.478
Phocaeicola_dorei sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.172 0.185 0.352 NA 0.466 logistic 1530 769 0.352 0.478
Haemophilus_parainfluenzae sex Female:diagnosisCD sexFemale:diagnosisCD -0.251 0.326 NA NA NA LM 1530 674 0.353 0.478
Phascolarctobacterium_faecium sex Female:diagnosisCD sexFemale:diagnosisCD 1 0.312 NA NA NA LM 1530 503 0.353 0.478
Haemophilus_parainfluenzae sex Female:diagnosisCD sexFemale:diagnosisCD -0.151 0.163 0.353 NA 0.467 logistic 1530 674 0.353 0.478
Phascolarctobacterium_faecium sex Female:diagnosisCD sexFemale:diagnosisCD 0.162 0.175 0.353 NA 0.467 logistic 1530 503 0.353 0.478
GGB1549_SGB2133 sex Male:diagnosisUC sexMale:diagnosisUC 0.246 2.58 1 NA 1 LM 1530 46 0.356 0.48
GGB1549_SGB2133 sex Male:diagnosisUC sexMale:diagnosisUC -1.26 0.981 0.197 NA 0.292 logistic 1530 46 0.356 0.48
GGB3277_SGB4327 sex Male:diagnosisUC sexMale:diagnosisUC 2.02 0.668 NA NA NA LM 1530 152 0.358 0.483
GGB3277_SGB4327 sex Male:diagnosisUC sexMale:diagnosisUC -0.266 0.289 0.358 NA 0.472 logistic 1530 152 0.358 0.483
Firmicutes_bacterium_AF16_15 sex Male:diagnosisUC sexMale:diagnosisUC -0.323 0.363 NA NA NA LM 1530 827 0.365 0.49
Firmicutes_bacterium_AF16_15 sex Male:diagnosisUC sexMale:diagnosisUC -0.181 0.2 0.365 NA 0.479 logistic 1530 827 0.365 0.49
Alistipes_finegoldii sex Female:diagnosisUC sexFemale:diagnosisUC -0.0321 0.335 NA NA NA LM 1530 639 0.366 0.492
Alistipes_finegoldii sex Female:diagnosisUC sexFemale:diagnosisUC -0.152 0.169 0.366 NA 0.48 logistic 1530 639 0.366 0.492
Parabacteroides_distasonis sex Female:diagnosisUC sexFemale:diagnosisUC -0.212 0.181 NA NA NA LM 1530 1140 0.372 0.497
Parabacteroides_distasonis sex Female:diagnosisUC sexFemale:diagnosisUC 0.176 0.197 0.372 NA 0.485 logistic 1530 1140 0.372 0.497
Proteus_mirabilis sex Female:diagnosisUC sexFemale:diagnosisUC -3.71 0.966 NA NA NA LM 1530 100 0.379 0.505
Proteus_mirabilis sex Female:diagnosisUC sexFemale:diagnosisUC 0.304 0.346 0.379 NA 0.494 logistic 1530 100 0.379 0.505
Phocaeicola_plebeius sex Female:diagnosisCD sexFemale:diagnosisCD 2.35 0.786 NA NA NA LM 1530 127 0.384 0.511
Phocaeicola_plebeius sex Female:diagnosisCD sexFemale:diagnosisCD 0.266 0.306 0.384 NA 0.5 logistic 1530 127 0.384 0.511
Bifidobacterium_longum sex Male:diagnosisUC sexMale:diagnosisUC -0.807 0.332 NA NA NA LM 1530 843 0.386 0.512
Bifidobacterium_longum sex Male:diagnosisUC sexMale:diagnosisUC 0.176 0.202 0.386 NA 0.501 logistic 1530 843 0.386 0.512
Phascolarctobacterium_succinatutens sex Female:diagnosisCD sexFemale:diagnosisCD 0.937 0.813 NA NA NA LM 1530 125 0.386 0.513
Phascolarctobacterium_succinatutens sex Female:diagnosisCD sexFemale:diagnosisCD 0.326 0.376 0.386 NA 0.501 logistic 1530 125 0.386 0.513
Acidaminococcus_intestini sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.451 0.535 NA NA NA LM 1530 173 0.39 0.517
Acidaminococcus_intestini sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.205 0.238 0.39 NA 0.505 logistic 1530 173 0.39 0.517
Escherichia_coli sex Female:diagnosisCD sexFemale:diagnosisCD -0.102 0.35 NA NA NA LM 1530 707 0.392 0.52
Escherichia_coli sex Female:diagnosisCD sexFemale:diagnosisCD 0.133 0.156 0.392 NA 0.508 logistic 1530 707 0.392 0.52
Ruthenibacterium_lactatiformans sex Male:diagnosisUC sexMale:diagnosisUC -0.399 0.38 NA NA NA LM 1530 797 0.395 0.523
Ruthenibacterium_lactatiformans sex Male:diagnosisUC sexMale:diagnosisUC 0.167 0.196 0.395 NA 0.511 logistic 1530 797 0.395 0.523
Bacteroides_stercoris sex Female:diagnosisCD sexFemale:diagnosisCD -0.0257 0.353 1 NA 1 LM 1530 826 0.399 0.527
Paraprevotella_clara sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.08 0.904 NA NA NA LM 1530 178 0.399 0.527
GGB1549_SGB2133 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 46 0.399 0.527
Bacteroides_stercoris sex Female:diagnosisCD sexFemale:diagnosisCD 0.188 0.155 0.225 NA 0.324 logistic 1530 826 0.399 0.527
GGB1549_SGB2133 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.21 1.43 0.399 NA 0.514 logistic 1530 46 0.399 0.527
Paraprevotella_clara sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.267 0.317 0.399 NA 0.514 logistic 1530 178 0.399 0.527
Bacteroides_uniformis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.302 0.237 NA NA NA LM 1530 1240 0.403 0.53
Ruminococcus_gnavus sex Female:diagnosisCD sexFemale:diagnosisCD 0.0289 0.292 1 NA 1 LM 1530 767 0.403 0.53
Bacteroides_uniformis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.199 0.238 0.403 NA 0.517 logistic 1530 1240 0.403 0.53
Ruminococcus_gnavus sex Female:diagnosisCD sexFemale:diagnosisCD 0.19 0.158 0.228 NA 0.328 logistic 1530 767 0.403 0.53
Blautia_obeum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.44 0.307 NA NA NA LM 1530 899 0.41 0.537
Blautia_obeum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.151 0.183 0.41 NA 0.523 logistic 1530 899 0.41 0.537
Clostridium_sp_AM49_4BH sex Female:diagnosisCD sexFemale:diagnosisCD 0.857 0.58 NA NA NA LM 1530 344 0.411 0.538
Clostridium_sp_AM49_4BH sex Female:diagnosisCD sexFemale:diagnosisCD 0.204 0.248 0.411 NA 0.524 logistic 1530 344 0.411 0.538
Alistipes_dispar sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.22 0.662 NA NA NA LM 1530 83 0.413 0.54
Bacteroides_mediterraneensis sex Female:diagnosisUC sexFemale:diagnosisUC -6.55 8.1 NA NA NA LM 1530 13 0.413 0.54
Bilophila_wadsworthia sex Male:diagnosisUC sexMale:diagnosisUC 0.632 0.318 NA NA NA LM 1530 764 0.413 0.54
Alistipes_dispar sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.262 0.32 0.413 NA 0.525 logistic 1530 83 0.413 0.54
Bacteroides_mediterraneensis sex Female:diagnosisUC sexFemale:diagnosisUC 0.648 0.791 0.413 NA 0.525 logistic 1530 13 0.413 0.54
Bilophila_wadsworthia sex Male:diagnosisUC sexMale:diagnosisUC -0.161 0.196 0.413 NA 0.525 logistic 1530 764 0.413 0.54
Eubacterium_rectale sex Male:diagnosisUC sexMale:diagnosisUC 0.43 0.25 NA NA NA LM 1530 1210 0.414 0.54
Eubacterium_rectale sex Male:diagnosisUC sexMale:diagnosisUC -0.187 0.229 0.414 NA 0.525 logistic 1530 1210 0.414 0.54
Blautia_obeum sex Female:diagnosisCD sexFemale:diagnosisCD 0.16 0.257 1 NA 1 LM 1530 899 0.423 0.552
Blautia_obeum sex Female:diagnosisCD sexFemale:diagnosisCD 0.187 0.159 0.241 NA 0.343 logistic 1530 899 0.423 0.552
Proteus_mirabilis sex Male:diagnosisUC sexMale:diagnosisUC -4.98 1.36 NA NA NA LM 1530 100 0.426 0.554
Bacteroides_mediterraneensis sex Female:diagnosisCD sexFemale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 13 0.425 0.554
Bacteroides_mediterraneensis sex Female:diagnosisCD sexFemale:diagnosisCD -0.961 1.21 0.425 NA 0.539 logistic 1530 13 0.425 0.554
Proteus_mirabilis sex Male:diagnosisUC sexMale:diagnosisUC -0.371 0.466 0.426 NA 0.54 logistic 1530 100 0.426 0.554
GGB3478_SGB14857 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 16 0.436 0.564
GGB3478_SGB14857 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.04 1.34 0.436 NA 0.55 logistic 1530 16 0.436 0.564
GGB1680_SGB2312 sex Male:diagnosisUC sexMale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 12 0.439 0.567
GGB1680_SGB2312 sex Male:diagnosisUC sexMale:diagnosisUC -1.4 1.8 0.439 NA 0.552 logistic 1530 12 0.439 0.567
Barnesiella_intestinihominis sex Female:diagnosisUC sexFemale:diagnosisUC -0.544 0.407 NA NA NA LM 1530 431 0.44 0.567
Clostridium_sp_AM22_11AC sex Female:diagnosisUC sexFemale:diagnosisUC -0.382 0.287 NA NA NA LM 1530 730 0.44 0.567
Dysgonomonas_mossii sex Male:diagnosisUC sexMale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 31 0.441 0.567
Barnesiella_intestinihominis sex Female:diagnosisUC sexFemale:diagnosisUC -0.149 0.192 0.44 NA 0.553 logistic 1530 431 0.44 0.567
Clostridium_sp_AM22_11AC sex Female:diagnosisUC sexFemale:diagnosisUC -0.127 0.165 0.44 NA 0.553 logistic 1530 730 0.44 0.567
Dysgonomonas_mossii sex Male:diagnosisUC sexMale:diagnosisUC 0.974 1.26 0.441 NA 0.553 logistic 1530 31 0.441 0.567
Dialister_invisus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.482 0.28 NA NA NA LM 1530 726 0.444 0.57
Dialister_invisus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.139 0.182 0.444 NA 0.556 logistic 1530 726 0.444 0.57
Prevotella_copri_clade_B sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 5.69 1.27 NA NA NA LM 1530 40 0.448 0.575
Prevotella_copri_clade_B sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.278 0.367 0.448 NA 0.561 logistic 1530 40 0.448 0.575
Lachnospira_pectinoschiza sex Female:diagnosisCD sexFemale:diagnosisCD 0.868 0.363 NA NA NA LM 1530 500 0.454 0.58
Lachnospira_pectinoschiza sex Female:diagnosisCD sexFemale:diagnosisCD 0.13 0.174 0.454 NA 0.567 logistic 1530 500 0.454 0.58
Veillonella_rogosae sex Female:diagnosisCD sexFemale:diagnosisCD -0.397 0.529 NA NA NA LM 1530 207 0.457 0.583
Veillonella_rogosae sex Female:diagnosisCD sexFemale:diagnosisCD 0.166 0.224 0.457 NA 0.57 logistic 1530 207 0.457 0.583
Prevotella_stercorea sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 40 0.462 0.589
Prevotella_stercorea sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.772 1.05 0.462 NA 0.575 logistic 1530 40 0.462 0.589
Tyzzerella_nexilis sex Female:diagnosisUC sexFemale:diagnosisUC 0.674 0.571 NA NA NA LM 1530 188 0.466 0.593
Tyzzerella_nexilis sex Female:diagnosisUC sexFemale:diagnosisUC 0.179 0.246 0.466 NA 0.579 logistic 1530 188 0.466 0.593
GGB4237_SGB5728 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.469 0.596
GGB4237_SGB5728 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.06 1.47 0.469 NA 0.583 logistic 1530 6 0.469 0.596
Alistipes_SGB2313 sex Female:diagnosisUC sexFemale:diagnosisUC 3.38 1.08 NA NA NA LM 1530 73 0.472 0.599
Alistipes_SGB2313 sex Female:diagnosisUC sexFemale:diagnosisUC 0.285 0.396 0.472 NA 0.585 logistic 1530 73 0.472 0.599
Bacteroides_cellulosilyticus sex Female:diagnosisUC sexFemale:diagnosisUC -0.152 0.438 NA NA NA LM 1530 433 0.472 0.599
Bacteroides_cellulosilyticus sex Female:diagnosisUC sexFemale:diagnosisUC 0.131 0.182 0.472 NA 0.585 logistic 1530 433 0.472 0.599
Bacteroides_mediterraneensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 13 0.476 0.603
Bacteroides_mediterraneensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.988 1.39 0.476 NA 0.589 logistic 1530 13 0.476 0.603
Prevotella_copri_clade_E sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 38 0.477 0.604
Prevotella_copri_clade_E sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.745 1.05 0.477 NA 0.589 logistic 1530 38 0.477 0.604
Bacteroides_salyersiae sex Female:diagnosisUC sexFemale:diagnosisUC 2.3 0.762 NA NA NA LM 1530 150 0.482 0.61
GGB3277_SGB4327 sex Female:diagnosisUC sexFemale:diagnosisUC 0.164 0.561 1 NA 1 LM 1530 152 0.483 0.61
Bacteroides_salyersiae sex Female:diagnosisUC sexFemale:diagnosisUC -0.197 0.28 0.482 NA 0.595 logistic 1530 150 0.482 0.61
GGB3277_SGB4327 sex Female:diagnosisUC sexFemale:diagnosisUC -0.261 0.242 0.281 NA 0.39 logistic 1530 152 0.483 0.61
Parasutterella_SGB9260 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.18 0.426 NA NA NA LM 1530 269 0.484 0.61
Parasutterella_SGB9260 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.153 0.218 0.484 NA 0.596 logistic 1530 269 0.484 0.61
Akkermansia_sp_KLE1798 sex Female:diagnosisUC sexFemale:diagnosisUC 2.28 1.77 NA NA NA LM 1530 70 0.488 0.614
Akkermansia_sp_KLE1798 sex Female:diagnosisUC sexFemale:diagnosisUC -0.488 0.703 0.488 NA 0.6 logistic 1530 70 0.488 0.614
Bacteroides_ilei sex Female:diagnosisUC sexFemale:diagnosisUC -13.6 2.48 NA NA NA LM 1530 17 0.489 0.615
Bacteroides_ilei sex Female:diagnosisUC sexFemale:diagnosisUC 0.841 1.22 0.489 NA 0.6 logistic 1530 17 0.489 0.615
Eubacterium_ventriosum sex Male:diagnosisUC sexMale:diagnosisUC 0.252 0.444 1 NA 1 LM 1530 520 0.492 0.617
Eubacterium_ventriosum sex Male:diagnosisUC sexMale:diagnosisUC 0.226 0.212 0.287 NA 0.397 logistic 1530 520 0.492 0.617
Bacteroides_stercoris sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.483 0.392 NA NA NA LM 1530 826 0.502 0.629
Bacteroides_stercoris sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.118 0.175 0.502 NA 0.616 logistic 1530 826 0.502 0.629
Bacteroides_salyersiae sex Female:diagnosisCD sexFemale:diagnosisCD 0.448 0.745 NA NA NA LM 1530 150 0.503 0.629
Bacteroides_salyersiae sex Female:diagnosisCD sexFemale:diagnosisCD -0.177 0.265 0.503 NA 0.616 logistic 1530 150 0.503 0.629
Oscillibacter_sp_ER4 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.404 0.395 NA NA NA LM 1530 458 0.508 0.635
Oscillibacter_sp_ER4 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.14 0.212 0.508 NA 0.621 logistic 1530 458 0.508 0.635
Alistipes_shahii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.58 0.272 NA NA NA LM 1530 673 0.511 0.636
Alistipes_shahii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.119 0.181 0.511 NA 0.622 logistic 1530 673 0.511 0.636
Candidatus_Cibionibacter_quicibialis sex Male:diagnosisUC sexMale:diagnosisUC 0.53 0.321 NA NA NA LM 1530 933 0.512 0.637
Oscillospiraceae_bacterium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 81 0.512 0.637
Candidatus_Cibionibacter_quicibialis sex Male:diagnosisUC sexMale:diagnosisUC -0.127 0.193 0.512 NA 0.622 logistic 1530 933 0.512 0.637
Oscillospiraceae_bacterium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.961 1.47 0.512 NA 0.622 logistic 1530 81 0.512 0.637
Phocaeicola_coprocola sex Female:diagnosisCD sexFemale:diagnosisCD -0.544 1.11 NA NA NA LM 1530 101 0.514 0.638
Phocaeicola_coprocola sex Female:diagnosisCD sexFemale:diagnosisCD -0.184 0.283 0.514 NA 0.623 logistic 1530 101 0.514 0.638
Bacteroides_caecigallinarum sex Female:diagnosisCD sexFemale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 21 0.525 0.649
Bacteroides_caecigallinarum sex Female:diagnosisCD sexFemale:diagnosisCD -0.805 1.27 0.525 NA 0.635 logistic 1530 21 0.525 0.649
Lacrimispora_amygdalina sex Female:diagnosisCD sexFemale:diagnosisCD -0.0905 0.235 NA NA NA LM 1530 865 0.526 0.65
Lacrimispora_amygdalina sex Female:diagnosisCD sexFemale:diagnosisCD 0.104 0.163 0.526 NA 0.635 logistic 1530 865 0.526 0.65
Coprococcus_eutactus sex Female:diagnosisUC sexFemale:diagnosisUC 4.22 0.682 NA NA NA LM 1530 177 0.53 0.652
Coprococcus_eutactus sex Female:diagnosisUC sexFemale:diagnosisUC 0.183 0.292 0.53 NA 0.638 logistic 1530 177 0.53 0.652
Alistipes_finegoldii sex Female:diagnosisCD sexFemale:diagnosisCD 0.18 0.306 1 NA 1 LM 1530 639 0.538 0.662
Alistipes_finegoldii sex Female:diagnosisCD sexFemale:diagnosisCD 0.158 0.159 0.32 NA 0.432 logistic 1530 639 0.538 0.662
Eisenbergiella_massiliensis sex Male:diagnosisUC sexMale:diagnosisUC -0.799 0.674 NA NA NA LM 1530 417 0.539 0.662
Eisenbergiella_massiliensis sex Male:diagnosisUC sexMale:diagnosisUC -0.148 0.241 0.539 NA 0.648 logistic 1530 417 0.539 0.662
Prevotella_copri_clade_A sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 1.11 1.03 NA NA NA LM 1530 289 0.542 0.665
Butyrivibrio_crossotus sex Female:diagnosisCD sexFemale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 43 0.543 0.665
Butyrivibrio_crossotus sex Female:diagnosisCD sexFemale:diagnosisCD 0.686 1.13 0.543 NA 0.651 logistic 1530 43 0.543 0.665
Prevotella_copri_clade_A sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.138 0.227 0.542 NA 0.651 logistic 1530 289 0.542 0.665
Bilophila_wadsworthia sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.179 0.263 1 NA 1 LM 1530 764 0.546 0.667
Bilophila_wadsworthia sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.177 0.18 0.326 NA 0.439 logistic 1530 764 0.546 0.667
Prevotella_marseillensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 3.73 11.1 NA NA NA LM 1530 18 0.552 0.673
Prevotella_marseillensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.535 0.898 0.552 NA 0.659 logistic 1530 18 0.552 0.673
Alistipes_communis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 1.02 0.325 NA NA NA LM 1530 407 0.553 0.673
Alistipes_communis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.114 0.192 0.553 NA 0.659 logistic 1530 407 0.553 0.673
Ruminococcus_gnavus sex Male:diagnosisUC sexMale:diagnosisUC -1.31 0.379 NA NA NA LM 1530 767 0.557 0.677
Ruminococcus_gnavus sex Male:diagnosisUC sexMale:diagnosisUC -0.113 0.192 0.557 NA 0.662 logistic 1530 767 0.557 0.677
Prevotella_stercorea sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 40 0.561 0.681
Prevotella_stercorea sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.881 1.52 0.561 NA 0.665 logistic 1530 40 0.561 0.681
Haemophilus_parainfluenzae sex Male:diagnosisUC sexMale:diagnosisUC -0.305 0.372 NA NA NA LM 1530 674 0.563 0.682
Prevotella_copri_clade_E sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 38 0.563 0.682
Haemophilus_parainfluenzae sex Male:diagnosisUC sexMale:diagnosisUC 0.113 0.195 0.563 NA 0.666 logistic 1530 674 0.563 0.682
Prevotella_copri_clade_E sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.876 1.52 0.563 NA 0.666 logistic 1530 38 0.563 0.682
Collinsella_SGB14861 sex Male:diagnosisUC sexMale:diagnosisUC 1.26 0.4 NA NA NA LM 1530 593 0.567 0.686
Collinsella_SGB14861 sex Male:diagnosisUC sexMale:diagnosisUC -0.114 0.2 0.567 NA 0.67 logistic 1530 593 0.567 0.686
Fusicatenibacter_saccharivorans sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.00271 0.233 1 NA 1 LM 1530 1120 0.576 0.696
Fusicatenibacter_saccharivorans sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.191 0.204 0.349 NA 0.463 logistic 1530 1120 0.576 0.696
Phocaeicola_sartorii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.44 0.45 NA NA NA LM 1530 424 0.579 0.698
Phocaeicola_sartorii sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.118 0.212 0.579 NA 0.683 logistic 1530 424 0.579 0.698
Ruminococcus_sp_BSD2780120874_150323_B10 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.51 1.12 NA NA NA LM 1530 90 0.584 0.703
Ruminococcus_sp_BSD2780120874_150323_B10 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.191 0.35 0.584 NA 0.689 logistic 1530 90 0.584 0.703
GGB51647_SGB4348 sex Male:diagnosisUC sexMale:diagnosisUC 2.27 1.06 NA NA NA LM 1530 123 0.596 0.714
Ruminococcus_lactaris sex Male:diagnosisUC sexMale:diagnosisUC 0.0902 0.506 1 NA 1 LM 1530 379 0.596 0.714
GGB51647_SGB4348 sex Male:diagnosisUC sexMale:diagnosisUC 0.222 0.419 0.596 NA 0.701 logistic 1530 123 0.596 0.714
Ruminococcus_lactaris sex Male:diagnosisUC sexMale:diagnosisUC 0.216 0.238 0.364 NA 0.479 logistic 1530 379 0.596 0.714
Dorea_longicatena sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.231 0.248 NA NA NA LM 1530 1020 0.609 0.724
Prevotella_copri_clade_A sex Male:diagnosisUC sexMale:diagnosisUC 2.38 1.1 NA NA NA LM 1530 289 0.608 0.724
Dorea_longicatena sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0958 0.187 0.609 NA 0.709 logistic 1530 1020 0.609 0.724
Prevotella_copri_clade_A sex Male:diagnosisUC sexMale:diagnosisUC 0.13 0.253 0.608 NA 0.709 logistic 1530 289 0.608 0.724
GGB1680_SGB2312 sex Female:diagnosisUC sexFemale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 12 0.618 0.734
GGB1680_SGB2312 sex Female:diagnosisUC sexFemale:diagnosisUC -0.743 1.49 0.618 NA 0.719 logistic 1530 12 0.618 0.734
GGB16040_SGB9347 sex Female:diagnosisCD sexFemale:diagnosisCD -0.402 0.927 NA NA NA LM 1530 114 0.621 0.737
GGB16040_SGB9347 sex Female:diagnosisCD sexFemale:diagnosisCD 0.165 0.333 0.621 NA 0.722 logistic 1530 114 0.621 0.737
GGB58485_SGB80143 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 14 0.627 0.743
GGB58485_SGB80143 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.273 0.562 0.627 NA 0.727 logistic 1530 14 0.627 0.743
Escherichia_coli sex Male:diagnosisUC sexMale:diagnosisUC -0.234 0.442 NA NA NA LM 1530 707 0.632 0.747
Escherichia_coli sex Male:diagnosisUC sexMale:diagnosisUC -0.0913 0.19 0.632 NA 0.732 logistic 1530 707 0.632 0.747
Coprococcus_comes sex Female:diagnosisUC sexFemale:diagnosisUC 0.0448 0.263 1 NA 1 LM 1530 759 0.635 0.751
Coprococcus_comes sex Female:diagnosisUC sexFemale:diagnosisUC -0.141 0.166 0.396 NA 0.512 logistic 1530 759 0.635 0.751
Eubacterium_siraeum sex Male:diagnosisUC sexMale:diagnosisUC 1.43 0.598 NA NA NA LM 1530 565 0.637 0.752
Eubacterium_siraeum sex Male:diagnosisUC sexMale:diagnosisUC -0.105 0.222 0.637 NA 0.737 logistic 1530 565 0.637 0.752
Roseburia_intestinalis sex Female:diagnosisCD sexFemale:diagnosisCD -1.29 0.348 NA NA NA LM 1530 842 0.639 0.752
Roseburia_intestinalis sex Female:diagnosisCD sexFemale:diagnosisCD 0.0738 0.157 0.639 NA 0.739 logistic 1530 842 0.639 0.752
Eubacterium_ventriosum sex Female:diagnosisCD sexFemale:diagnosisCD -1.52 0.382 NA NA NA LM 1530 520 0.646 0.758
Roseburia_faecis sex Male:diagnosisUC sexMale:diagnosisUC 0.319 0.36 1 NA 1 LM 1530 922 0.648 0.758
Eubacterium_ventriosum sex Female:diagnosisCD sexFemale:diagnosisCD -0.0829 0.181 0.646 NA 0.744 logistic 1530 520 0.646 0.758
Roseburia_faecis sex Male:diagnosisUC sexMale:diagnosisUC -0.162 0.195 0.406 NA 0.52 logistic 1530 922 0.648 0.758
Clostridium_fessum sex Female:diagnosisUC sexFemale:diagnosisUC -0.328 0.237 NA NA NA LM 1530 926 0.651 0.76
Clostridium_fessum sex Female:diagnosisUC sexFemale:diagnosisUC -0.0758 0.167 0.651 NA 0.748 logistic 1530 926 0.651 0.76
Escherichia_coli sex Female:diagnosisUC sexFemale:diagnosisUC -1.44 0.362 NA NA NA LM 1530 707 0.652 0.761
Escherichia_coli sex Female:diagnosisUC sexFemale:diagnosisUC 0.0732 0.162 0.652 NA 0.749 logistic 1530 707 0.652 0.761
Faecalibacterium_SGB15315 sex Female:diagnosisCD sexFemale:diagnosisCD -0.54 0.403 NA NA NA LM 1530 619 0.656 0.764
Faecalibacterium_SGB15315 sex Female:diagnosisCD sexFemale:diagnosisCD -0.0764 0.172 0.656 NA 0.752 logistic 1530 619 0.656 0.764
Waltera_intestinalis sex Female:diagnosisCD sexFemale:diagnosisCD 1.45 0.476 NA NA NA LM 1530 524 0.67 0.779
GGB4237_SGB5728 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.671 0.779
GGB4237_SGB5728 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.429 1.01 0.671 NA 0.765 logistic 1530 6 0.671 0.779
Waltera_intestinalis sex Female:diagnosisCD sexFemale:diagnosisCD -0.0761 0.179 0.67 NA 0.765 logistic 1530 524 0.67 0.779
Rikenellaceae_bacterium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 67 0.677 0.784
Rikenellaceae_bacterium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.633 1.52 0.677 NA 0.77 logistic 1530 67 0.677 0.784
Alistipes_communis sex Male:diagnosisUC sexMale:diagnosisUC 1.15 0.41 NA NA NA LM 1530 407 0.68 0.787
Candidatus_Cibionibacter_quicibialis sex Female:diagnosisCD sexFemale:diagnosisCD 0.48 0.251 NA NA NA LM 1530 933 0.681 0.787
GGB1549_SGB2133 sex Female:diagnosisUC sexFemale:diagnosisUC 0.906 1.21 NA NA NA LM 1530 46 0.682 0.787
GGB3478_SGB14857 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.55 2.37 NA NA NA LM 1530 16 0.681 0.787
GGB4237_SGB5728 sex Female:diagnosisUC sexFemale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.682 0.787
Alistipes_communis sex Male:diagnosisUC sexMale:diagnosisUC -0.0916 0.222 0.68 NA 0.773 logistic 1530 407 0.68 0.787
Candidatus_Cibionibacter_quicibialis sex Female:diagnosisCD sexFemale:diagnosisCD 0.0656 0.16 0.681 NA 0.773 logistic 1530 933 0.681 0.787
GGB1549_SGB2133 sex Female:diagnosisUC sexFemale:diagnosisUC 0.243 0.593 0.682 NA 0.773 logistic 1530 46 0.682 0.787
GGB3478_SGB14857 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.381 0.927 0.681 NA 0.773 logistic 1530 16 0.681 0.787
GGB4237_SGB5728 sex Female:diagnosisUC sexFemale:diagnosisUC -0.396 0.964 0.682 NA 0.773 logistic 1530 6 0.682 0.787
Oscillibacter_sp_ER4 sex Female:diagnosisCD sexFemale:diagnosisCD -0.0777 0.313 NA NA NA LM 1530 458 0.685 0.787
Oscillibacter_sp_ER4 sex Female:diagnosisCD sexFemale:diagnosisCD 0.0706 0.174 0.685 NA 0.774 logistic 1530 458 0.685 0.787
Clostridium_sp_AM22_11AC sex Male:diagnosisUC sexMale:diagnosisUC -0.464 0.327 NA NA NA LM 1530 730 0.689 0.79
Clostridium_sp_AM22_11AC sex Male:diagnosisUC sexMale:diagnosisUC 0.0773 0.193 0.689 NA 0.777 logistic 1530 730 0.689 0.79
Alistipes_SGB2313 sex Female:diagnosisCD sexFemale:diagnosisCD 3.58 1.15 NA NA NA LM 1530 73 0.704 0.805
Barnesiella_intestinihominis sex Male:diagnosisUC sexMale:diagnosisUC 1.18 0.502 NA NA NA LM 1530 431 0.704 0.805
Alistipes_SGB2313 sex Female:diagnosisCD sexFemale:diagnosisCD -0.167 0.44 0.704 NA 0.789 logistic 1530 73 0.704 0.805
Barnesiella_intestinihominis sex Male:diagnosisUC sexMale:diagnosisUC 0.0845 0.223 0.704 NA 0.789 logistic 1530 431 0.704 0.805
Alistipes_onderdonkii sex Male:diagnosisUC sexMale:diagnosisUC -0.828 0.4 NA NA NA LM 1530 831 0.716 0.816
Alistipes_onderdonkii sex Male:diagnosisUC sexMale:diagnosisUC -0.0695 0.191 0.716 NA 0.8 logistic 1530 831 0.716 0.816
Veillonella_rogosae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.67 0.705 NA NA NA LM 1530 207 0.717 0.816
GGB9342_SGB14306 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 92 0.717 0.816
GGB9342_SGB14306 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.549 1.52 0.717 NA 0.8 logistic 1530 92 0.717 0.816
Veillonella_rogosae sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.0932 0.257 0.717 NA 0.8 logistic 1530 207 0.717 0.816
Flavonifractor_plautii sex Male:diagnosisUC sexMale:diagnosisUC 0.105 0.26 1 NA 1 LM 1530 1220 0.726 0.822
GGB9708_SGB15234 sex Female:diagnosisUC sexFemale:diagnosisUC -0.464 0.685 NA NA NA LM 1530 282 0.724 0.822
Parabacteroides_distasonis sex Male:diagnosisUC sexMale:diagnosisUC -0.408 0.216 NA NA NA LM 1530 1140 0.724 0.822
Flavonifractor_plautii sex Male:diagnosisUC sexMale:diagnosisUC -0.166 0.233 0.476 NA 0.589 logistic 1530 1220 0.726 0.822
GGB9708_SGB15234 sex Female:diagnosisUC sexFemale:diagnosisUC 0.0918 0.26 0.724 NA 0.806 logistic 1530 282 0.724 0.822
Parabacteroides_distasonis sex Male:diagnosisUC sexMale:diagnosisUC -0.0775 0.22 0.724 NA 0.806 logistic 1530 1140 0.724 0.822
Collinsella_aerofaciens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.269 0.353 NA NA NA LM 1530 698 0.734 0.831
Collinsella_aerofaciens sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.063 0.185 0.734 NA 0.815 logistic 1530 698 0.734 0.831
Bifidobacterium_adolescentis sex Female:diagnosisCD sexFemale:diagnosisCD -0.232 0.497 NA NA NA LM 1530 427 0.735 0.831
Bifidobacterium_adolescentis sex Female:diagnosisCD sexFemale:diagnosisCD -0.0707 0.209 0.735 NA 0.816 logistic 1530 427 0.735 0.831
Faecalibacterium_SGB15315 sex Female:diagnosisUC sexFemale:diagnosisUC -0.816 0.407 NA NA NA LM 1530 619 0.737 0.833
Faecalibacterium_SGB15315 sex Female:diagnosisUC sexFemale:diagnosisUC 0.0589 0.176 0.737 NA 0.818 logistic 1530 619 0.737 0.833
Veillonella_rogosae sex Male:diagnosisUC sexMale:diagnosisUC -1.26 0.665 NA NA NA LM 1530 207 0.744 0.839
Veillonella_rogosae sex Male:diagnosisUC sexMale:diagnosisUC -0.0908 0.278 0.744 NA 0.824 logistic 1530 207 0.744 0.839
Bacteroides_caecigallinarum sex Male:diagnosisUC sexMale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 21 0.748 0.843
Bacteroides_caecigallinarum sex Male:diagnosisUC sexMale:diagnosisUC -0.519 1.62 0.748 NA 0.828 logistic 1530 21 0.748 0.843
Clostridiales_bacterium sex Male:diagnosisUC sexMale:diagnosisUC 0.647 0.307 NA NA NA LM 1530 985 0.752 0.846
Clostridiales_bacterium sex Male:diagnosisUC sexMale:diagnosisUC 0.0625 0.198 0.752 NA 0.83 logistic 1530 985 0.752 0.846
Ruminococcus_torques sex Male:diagnosisUC sexMale:diagnosisUC 0.331 0.292 1 NA 1 LM 1530 1090 0.758 0.853
Butyrivibrio_crossotus sex Female:diagnosisUC sexFemale:diagnosisUC NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 43 0.759 0.853
Butyrivibrio_crossotus sex Female:diagnosisUC sexFemale:diagnosisUC -0.452 1.47 0.759 NA 0.836 logistic 1530 43 0.759 0.853
Ruminococcus_torques sex Male:diagnosisUC sexMale:diagnosisUC 0.132 0.2 0.509 NA 0.621 logistic 1530 1090 0.758 0.853
Bacteroides_fragilis sex Male:diagnosisUC sexMale:diagnosisUC 0.0653 0.379 1 NA 1 LM 1530 787 0.76 0.853
Bacteroides_fragilis sex Male:diagnosisUC sexMale:diagnosisUC -0.128 0.194 0.51 NA 0.621 logistic 1530 787 0.76 0.853
GGB4237_SGB5728 sex Female:diagnosisCD sexFemale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.761 0.854
GGB4237_SGB5728 sex Female:diagnosisCD sexFemale:diagnosisCD -0.286 0.94 0.761 NA 0.838 logistic 1530 6 0.761 0.854
GGB1543_SGB2126 sex Male:diagnosisUC sexMale:diagnosisUC -2.14 2.1 NA NA NA LM 1530 42 0.772 0.863
Oscillibacter_sp_ER4 sex Male:diagnosisUC sexMale:diagnosisUC -0.867 0.4 NA NA NA LM 1530 458 0.772 0.863
GGB1543_SGB2126 sex Male:diagnosisUC sexMale:diagnosisUC -0.164 0.568 0.772 NA 0.848 logistic 1530 42 0.772 0.863
Oscillibacter_sp_ER4 sex Male:diagnosisUC sexMale:diagnosisUC 0.0625 0.215 0.772 NA 0.848 logistic 1530 458 0.772 0.863
Coprococcus_comes sex Female:diagnosisCD sexFemale:diagnosisCD -0.522 0.244 NA NA NA LM 1530 759 0.782 0.873
Coprococcus_comes sex Female:diagnosisCD sexFemale:diagnosisCD -0.0436 0.157 0.782 NA 0.858 logistic 1530 759 0.782 0.873
Roseburia_hominis sex Female:diagnosisUC sexFemale:diagnosisUC 0.626 0.297 NA NA NA LM 1530 876 0.783 0.874
Roseburia_hominis sex Female:diagnosisUC sexFemale:diagnosisUC -0.0458 0.166 0.783 NA 0.859 logistic 1530 876 0.783 0.874
GGB1266_SGB1699 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 3.43 1.71 NA NA NA LM 1530 84 0.787 0.877
GGB1266_SGB1699 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.203 0.751 0.787 NA 0.862 logistic 1530 84 0.787 0.877
Roseburia_sp_AF02_12 sex Female:diagnosisUC sexFemale:diagnosisUC 1.12 0.582 NA NA NA LM 1530 363 0.794 0.884
Roseburia_sp_AF02_12 sex Female:diagnosisUC sexFemale:diagnosisUC -0.0567 0.218 0.794 NA 0.869 logistic 1530 363 0.794 0.884
Bacteroides_mediterraneensis sex Male:diagnosisUC sexMale:diagnosisUC -11 14.9 NA NA NA LM 1530 13 0.801 0.887
Barnesiella_intestinihominis sex Female:diagnosisCD sexFemale:diagnosisCD 1.84 0.4 NA NA NA LM 1530 431 0.8 0.887
Lachnospira_pectinoschiza sex Male:diagnosisUC sexMale:diagnosisUC 0.33 0.464 1 NA 1 LM 1530 500 0.801 0.887
Bacteroides_mediterraneensis sex Male:diagnosisUC sexMale:diagnosisUC 0.255 1.01 0.801 NA 0.874 logistic 1530 13 0.801 0.887
Barnesiella_intestinihominis sex Female:diagnosisCD sexFemale:diagnosisCD -0.0465 0.184 0.8 NA 0.874 logistic 1530 431 0.8 0.887
Lachnospira_pectinoschiza sex Male:diagnosisUC sexMale:diagnosisUC -0.129 0.219 0.554 NA 0.66 logistic 1530 500 0.801 0.887
GGB16040_SGB9347 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -2 1.12 NA NA NA LM 1530 114 0.803 0.888
GGB16040_SGB9347 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.106 0.423 0.803 NA 0.874 logistic 1530 114 0.803 0.888
Eubacterium_rectale sex Female:diagnosisUC sexFemale:diagnosisUC -0.122 0.208 NA NA NA LM 1530 1210 0.808 0.89
Eubacterium_rectale sex Female:diagnosisUC sexFemale:diagnosisUC -0.0497 0.204 0.808 NA 0.878 logistic 1530 1210 0.808 0.89
Bacteroides_faecis sex Male:diagnosisUC sexMale:diagnosisUC 0.497 0.688 NA NA NA LM 1530 434 0.815 0.896
Faecalibacterium_SGB15346 sex Female:diagnosisUC sexFemale:diagnosisUC 0.706 0.295 NA NA NA LM 1530 743 0.816 0.896
Lacrimispora_amygdalina sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.958 0.263 NA NA NA LM 1530 865 0.814 0.896
Phascolarctobacterium_faecium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -1.13 0.397 NA NA NA LM 1530 503 0.816 0.896
Bacteroides_faecis sex Male:diagnosisUC sexMale:diagnosisUC -0.0519 0.222 0.815 NA 0.883 logistic 1530 434 0.815 0.896
Faecalibacterium_SGB15346 sex Female:diagnosisUC sexFemale:diagnosisUC 0.0383 0.165 0.816 NA 0.883 logistic 1530 743 0.816 0.896
Lacrimispora_amygdalina sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.0438 0.186 0.814 NA 0.883 logistic 1530 865 0.814 0.896
Phascolarctobacterium_faecium sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0489 0.21 0.816 NA 0.883 logistic 1530 503 0.816 0.896
Veillonella_parvula sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -3.03 0.508 NA NA NA LM 1530 547 0.817 0.896
Veillonella_parvula sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.0428 0.185 0.817 NA 0.883 logistic 1530 547 0.817 0.896
Parasutterella_SGB9260 sex Female:diagnosisUC sexFemale:diagnosisUC -0.268 0.39 NA NA NA LM 1530 269 0.822 0.899
GGB4237_SGB5728 sex Male:diagnosisUC sexMale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.821 0.899
GGB4237_SGB5728 sex Male:diagnosisUC sexMale:diagnosisUC 0.23 1.02 0.821 NA 0.886 logistic 1530 6 0.821 0.899
Parasutterella_SGB9260 sex Female:diagnosisUC sexFemale:diagnosisUC -0.0463 0.205 0.822 NA 0.886 logistic 1530 269 0.822 0.899
Roseburia_inulinivorans sex Female:diagnosisCD sexFemale:diagnosisCD -0.619 0.268 NA NA NA LM 1530 951 0.823 0.899
Roseburia_inulinivorans sex Female:diagnosisCD sexFemale:diagnosisCD 0.0361 0.161 0.823 NA 0.886 logistic 1530 951 0.823 0.899
Dysosmobacter_welbionis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.29 0.209 NA NA NA LM 1530 1190 0.826 0.901
Dysosmobacter_welbionis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0479 0.218 0.826 NA 0.887 logistic 1530 1190 0.826 0.901
Prevotella_SGB48271 sex Female:diagnosisUC sexFemale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.829 0.903
Prevotella_SGB48271 sex Female:diagnosisUC sexFemale:diagnosisUC 0.32 1.48 0.829 NA 0.89 logistic 1530 6 0.829 0.903
Bifidobacterium_longum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.17 0.324 NA NA NA LM 1530 843 0.833 0.907
Bilophila_wadsworthia sex Female:diagnosisCD sexFemale:diagnosisCD 0.608 0.246 NA NA NA LM 1530 764 0.833 0.907
Bifidobacterium_longum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.0391 0.186 0.833 NA 0.892 logistic 1530 843 0.833 0.907
Bilophila_wadsworthia sex Female:diagnosisCD sexFemale:diagnosisCD 0.0337 0.159 0.833 NA 0.892 logistic 1530 764 0.833 0.907
Enterocloster_clostridioformis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.337 0.48 NA NA NA LM 1530 312 0.839 0.91
Enterocloster_clostridioformis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0417 0.205 0.839 NA 0.896 logistic 1530 312 0.839 0.91
GGB3278_SGB4328 sex Female:diagnosisCD sexFemale:diagnosisCD -1.1 0.751 NA NA NA LM 1530 179 0.841 0.912
GGB3278_SGB4328 sex Female:diagnosisCD sexFemale:diagnosisCD 0.0574 0.287 0.841 NA 0.896 logistic 1530 179 0.841 0.912
Clostridium_sp_AF20_17LB sex Female:diagnosisCD sexFemale:diagnosisCD -0.695 0.309 NA NA NA LM 1530 654 0.846 0.913
Enterocloster_bolteae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.0587 0.324 1 NA 1 LM 1530 866 0.847 0.913
Dysgonomonas_mossii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 31 0.846 0.913
Clostridium_sp_AF20_17LB sex Female:diagnosisCD sexFemale:diagnosisCD 0.0316 0.163 0.846 NA 0.899 logistic 1530 654 0.846 0.913
Dysgonomonas_mossii sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.306 1.58 0.846 NA 0.899 logistic 1530 31 0.846 0.913
Enterocloster_bolteae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.0941 0.184 0.609 NA 0.709 logistic 1530 866 0.847 0.913
Parabacteroides_distasonis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.681 0.2 NA NA NA LM 1530 1140 0.849 0.915
Parabacteroides_distasonis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0413 0.217 0.849 NA 0.901 logistic 1530 1140 0.849 0.915
Veillonella_dispar sex Male:diagnosisUC sexMale:diagnosisUC -1.75 0.457 NA NA NA LM 1530 526 0.851 0.916
Veillonella_dispar sex Male:diagnosisUC sexMale:diagnosisUC 0.0381 0.202 0.851 NA 0.902 logistic 1530 526 0.851 0.916
Butyrivibrio_crossotus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 43 0.858 0.92
Butyrivibrio_crossotus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.298 1.66 0.858 NA 0.908 logistic 1530 43 0.858 0.92
Parabacteroides_distasonis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.631 0.196 NA NA NA LM 1530 1140 0.864 0.927
Parabacteroides_distasonis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.0361 0.212 0.864 NA 0.913 logistic 1530 1140 0.864 0.927
Prevotella_marseillensis sex Female:diagnosisUC sexFemale:diagnosisUC -4.21 6.4 NA NA NA LM 1530 18 0.866 0.927
Prevotella_marseillensis sex Female:diagnosisUC sexFemale:diagnosisUC -0.127 0.748 0.866 NA 0.913 logistic 1530 18 0.866 0.927
Bacteroides_caecigallinarum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -11.9 6.94 NA NA NA LM 1530 21 0.868 0.928
Firmicutes_bacterium_AF16_15 sex Female:diagnosisCD sexFemale:diagnosisCD -0.217 0.289 NA NA NA LM 1530 827 0.867 0.928
Bacteroides_caecigallinarum sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.178 1.07 0.868 NA 0.913 logistic 1530 21 0.868 0.928
Firmicutes_bacterium_AF16_15 sex Female:diagnosisCD sexFemale:diagnosisCD -0.0272 0.163 0.867 NA 0.913 logistic 1530 827 0.867 0.928
Tyzzerella_nexilis sex Male:diagnosisUC sexMale:diagnosisUC -1.13 0.695 NA NA NA LM 1530 188 0.871 0.929
Tyzzerella_nexilis sex Male:diagnosisUC sexMale:diagnosisUC 0.0478 0.293 0.871 NA 0.915 logistic 1530 188 0.871 0.929
GGB3175_SGB4191 sex Male:diagnosisUC sexMale:diagnosisUC 4.85 1.06 NA NA NA LM 1530 154 0.875 0.93
Prevotella_copri_clade_C sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 16 0.874 0.93
GGB3175_SGB4191 sex Male:diagnosisUC sexMale:diagnosisUC 0.0607 0.386 0.875 NA 0.917 logistic 1530 154 0.875 0.93
Prevotella_copri_clade_C sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.25 1.57 0.874 NA 0.917 logistic 1530 16 0.874 0.93
Prevotella_copri_clade_A sex Female:diagnosisCD sexFemale:diagnosisCD -0.0442 0.958 1 NA 1 LM 1530 289 0.888 0.942
Prevotella_copri_clade_A sex Female:diagnosisCD sexFemale:diagnosisCD -0.0935 0.216 0.665 NA 0.76 logistic 1530 289 0.888 0.942
Prevotella_SGB48271 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.89 0.943
Prevotella_SGB48271 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.218 1.58 0.89 NA 0.93 logistic 1530 6 0.89 0.943
GGB28645_SGB41268 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 3 0.892 0.945
GGB28645_SGB41268 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.217 1.6 0.892 NA 0.931 logistic 1530 3 0.892 0.945
GGB1680_SGB2312 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 12 0.894 0.946
GGB1680_SGB2312 sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.168 1.26 0.894 NA 0.932 logistic 1530 12 0.894 0.946
Bacteroides_faecis sex Female:diagnosisCD sexFemale:diagnosisCD -0.85 0.56 NA NA NA LM 1530 434 0.903 0.953
Bacteroides_faecis sex Female:diagnosisCD sexFemale:diagnosisCD 0.0217 0.177 0.903 NA 0.938 logistic 1530 434 0.903 0.953
Bacteroides_salyersiae sex Male:diagnosisUC sexMale:diagnosisUC 4.11 0.88 NA NA NA LM 1530 150 0.91 0.955
Eisenbergiella_massiliensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.196 0.614 1 NA 1 LM 1530 417 0.908 0.955
Bacteroides_salyersiae sex Male:diagnosisUC sexMale:diagnosisUC 0.0374 0.33 0.91 NA 0.941 logistic 1530 150 0.91 0.955
Eisenbergiella_massiliensis sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.0859 0.22 0.697 NA 0.783 logistic 1530 417 0.908 0.955
GGB16040_SGB9347 sex Male:diagnosisUC sexMale:diagnosisUC 0.59 1.06 NA NA NA LM 1530 114 0.912 0.956
GGB16040_SGB9347 sex Male:diagnosisUC sexMale:diagnosisUC 0.0461 0.418 0.912 NA 0.942 logistic 1530 114 0.912 0.956
Fusicatenibacter_saccharivorans sex Female:diagnosisUC sexFemale:diagnosisUC 0.647 0.221 NA NA NA LM 1530 1120 0.925 0.964
GGB3478_SGB14857 sex Female:diagnosisUC sexFemale:diagnosisUC 11.3 5 NA NA NA LM 1530 16 0.924 0.964
Prevotella_copri_clade_C sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 16 0.924 0.964
Fusicatenibacter_saccharivorans sex Female:diagnosisUC sexFemale:diagnosisUC -0.017 0.18 0.925 NA 0.95 logistic 1530 1120 0.925 0.964
GGB3478_SGB14857 sex Female:diagnosisUC sexFemale:diagnosisUC 0.0739 0.775 0.924 NA 0.95 logistic 1530 16 0.924 0.964
Prevotella_copri_clade_C sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.158 1.65 0.924 NA 0.95 logistic 1530 16 0.924 0.964
Clostridium_fessum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.521 0.251 NA NA NA LM 1530 926 0.927 0.966
Clostridium_fessum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.017 0.186 0.927 NA 0.952 logistic 1530 926 0.927 0.966
Clostridium_sp_1001270H_150608_G6 sex Male:diagnosisUC sexMale:diagnosisUC -8 3.39 NA NA NA LM 1530 141 0.929 0.967
Clostridium_sp_1001270H_150608_G6 sex Male:diagnosisUC sexMale:diagnosisUC 0.0892 1 0.929 NA 0.953 logistic 1530 141 0.929 0.967
Bacteroides_ilei sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 17 0.933 0.97
Bacteroides_ilei sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.138 1.65 0.933 NA 0.956 logistic 1530 17 0.933 0.97
Prevotella_SGB48271 sex Female:diagnosisCD sexFemale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.935 0.972
Prevotella_SGB48271 sex Female:diagnosisCD sexFemale:diagnosisCD 0.116 1.43 0.935 NA 0.957 logistic 1530 6 0.935 0.972
Bacteroides_xylanisolvens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.0241 0.377 1 NA 1 LM 1530 959 0.94 0.973
Phocaeicola_dorei sex Male:diagnosisUC sexMale:diagnosisUC -1.95 0.697 NA NA NA LM 1530 769 0.939 0.973
Veillonella_parvula sex Female:diagnosisUC sexFemale:diagnosisUC -1.65 0.424 NA NA NA LM 1530 547 0.94 0.973
Bacteroides_xylanisolvens sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.0598 0.192 0.756 NA 0.834 logistic 1530 959 0.94 0.973
Phocaeicola_dorei sex Male:diagnosisUC sexMale:diagnosisUC -0.0154 0.202 0.939 NA 0.959 logistic 1530 769 0.939 0.973
Veillonella_parvula sex Female:diagnosisUC sexFemale:diagnosisUC 0.0128 0.171 0.94 NA 0.959 logistic 1530 547 0.94 0.973
Blautia_wexlerae sex Female:diagnosisCD sexFemale:diagnosisCD -0.549 0.203 NA NA NA LM 1530 1300 0.946 0.977
Blautia_wexlerae sex Female:diagnosisCD sexFemale:diagnosisCD 0.014 0.207 0.946 NA 0.963 logistic 1530 1300 0.946 0.977
GGB9713_SGB15249 sex Female:diagnosisUC sexFemale:diagnosisUC 1.76 0.595 NA NA NA LM 1530 329 0.949 0.978
Veillonella_rogosae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD -0.673 0.591 NA NA NA LM 1530 207 0.949 0.978
GGB9713_SGB15249 sex Female:diagnosisUC sexFemale:diagnosisUC 0.0151 0.238 0.949 NA 0.964 logistic 1530 329 0.949 0.978
Veillonella_rogosae sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0161 0.251 0.949 NA 0.964 logistic 1530 207 0.949 0.978
Clostridium_leptum sex Male:diagnosisUC sexMale:diagnosisUC 0.918 0.446 NA NA NA LM 1530 652 0.953 0.979
GGB1680_SGB2312 sex Female:diagnosisCD sexFemale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 12 0.954 0.979
Clostridium_leptum sex Male:diagnosisUC sexMale:diagnosisUC -0.0123 0.21 0.953 NA 0.966 logistic 1530 652 0.953 0.979
GGB1680_SGB2312 sex Female:diagnosisCD sexFemale:diagnosisCD -0.072 1.24 0.954 NA 0.966 logistic 1530 12 0.954 0.979
Bacteroides_cellulosilyticus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.152 0.463 1 NA 1 LM 1530 433 0.966 0.991
Bacteroides_cellulosilyticus sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.0463 0.197 0.815 NA 0.883 logistic 1530 433 0.966 0.991
Clostridium_sp_AF34_10BH sex Male:diagnosisUC sexMale:diagnosisUC 0.358 0.34 1 NA 1 LM 1530 960 0.972 0.996
Clostridium_sp_AF34_10BH sex Male:diagnosisUC sexMale:diagnosisUC -0.0421 0.199 0.832 NA 0.892 logistic 1530 960 0.972 0.996
Alistipes_putredinis sex Male:diagnosisUC sexMale:diagnosisUC -0.0807 0.325 1 NA 1 LM 1530 873 0.975 0.996
Ruminococcus_gnavus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0528 0.343 1 NA 1 LM 1530 767 0.975 0.996
Bacteroides_ilei sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 17 0.973 0.996
Dysgonomonas_mossii sex Female:diagnosisCD sexFemale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 31 0.976 0.996
GGB28645_SGB41268 sex Female:diagnosisCD sexFemale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 3 0.976 0.996
Alistipes_putredinis sex Male:diagnosisUC sexMale:diagnosisUC 0.0384 0.192 0.841 NA 0.896 logistic 1530 873 0.975 0.996
Bacteroides_ilei sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -0.0528 1.58 0.973 NA 0.984 logistic 1530 17 0.973 0.996
Dysgonomonas_mossii sex Female:diagnosisCD sexFemale:diagnosisCD -0.0424 1.42 0.976 NA 0.985 logistic 1530 31 0.976 0.996
GGB28645_SGB41268 sex Female:diagnosisCD sexFemale:diagnosisCD -0.0428 1.43 0.976 NA 0.985 logistic 1530 3 0.976 0.996
Ruminococcus_gnavus sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.036 0.181 0.843 NA 0.897 logistic 1530 767 0.975 0.996
GGB6601_SGB9333 sex Female:diagnosisCD sexFemale:diagnosisCD 2.18 1.14 NA NA NA LM 1530 69 0.978 0.997
GGB6601_SGB9333 sex Female:diagnosisCD sexFemale:diagnosisCD -0.0101 0.369 0.978 NA 0.986 logistic 1530 69 0.978 0.997
Bacteroides_ovatus sex Female:diagnosisCD sexFemale:diagnosisCD 0.138 0.23 1 NA 1 LM 1530 1180 0.982 1
Bacteroides_ovatus sex Female:diagnosisCD sexFemale:diagnosisCD -0.0298 0.176 0.866 NA 0.913 logistic 1530 1180 0.982 1
Bacteroides_thetaiotaomicron sex Female:diagnosisUC sexFemale:diagnosisUC 0.382 0.307 1 NA 1 LM 1530 1060 0.994 1
Clostridium_sp_AF34_10BH sex Female:diagnosisUC sexFemale:diagnosisUC 0.186 0.283 1 NA 1 LM 1530 960 0.997 1
Clostridium_symbiosum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.615 0.402 NA NA NA LM 1530 539 0.995 1
Dialister_invisus sex Female:diagnosisCD sexFemale:diagnosisCD 0.247 0.252 1 NA 1 LM 1530 726 0.995 1
Dysosmobacter_welbionis sex Male:diagnosisUC sexMale:diagnosisUC 0.396 0.228 1 NA 1 LM 1530 1190 0.992 1
Eisenbergiella_massiliensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD -1.09 0.565 NA NA NA LM 1530 417 0.997 1
Gemmiger_formicilis sex Male:diagnosisUC sexMale:diagnosisUC -0.183 0.522 NA NA NA LM 1530 472 0.989 1
Odoribacter_splanchnicus sex Female:diagnosisCD sexFemale:diagnosisCD 0.213 0.191 1 NA 1 LM 1530 757 1 1
Veillonella_rogosae sex Female:diagnosisUC sexFemale:diagnosisUC 0.332 0.574 1 NA 1 LM 1530 207 0.99 1
Waltera_intestinalis sex Male:diagnosisUC sexMale:diagnosisUC 0.163 0.578 1 NA 1 LM 1530 524 1 1
GGB28645_SGB41268 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 3 0.992 1
GGB28645_SGB41268 sex Male:diagnosisUC sexMale:diagnosisUC NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 3 0.992 1
Prevotella_SGB48271 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 0.984 1
Bacteroides_thetaiotaomicron sex Female:diagnosisUC sexFemale:diagnosisUC -0.0172 0.176 0.922 NA 0.95 logistic 1530 1060 0.994 1
Clostridium_sp_AF34_10BH sex Female:diagnosisUC sexFemale:diagnosisUC -0.0115 0.17 0.946 NA 0.963 logistic 1530 960 0.997 1
Clostridium_symbiosum sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.00111 0.189 0.995 NA 0.997 logistic 1530 539 0.995 1
Dialister_invisus sex Female:diagnosisCD sexFemale:diagnosisCD 0.014 0.163 0.932 NA 0.955 logistic 1530 726 0.995 1
Dysosmobacter_welbionis sex Male:diagnosisUC sexMale:diagnosisUC 0.0248 0.221 0.911 NA 0.941 logistic 1530 1190 0.992 1
Eisenbergiella_massiliensis sex Male:diagnosisnonIBD sexMale:diagnosisnonIBD 0.000919 0.21 0.997 NA 0.997 logistic 1530 417 0.997 1
Gemmiger_formicilis sex Male:diagnosisUC sexMale:diagnosisUC 0.00321 0.226 0.989 NA 0.994 logistic 1530 472 0.989 1
GGB28645_SGB41268 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0161 1.65 0.992 NA 0.995 logistic 1530 3 0.992 1
GGB28645_SGB41268 sex Male:diagnosisUC sexMale:diagnosisUC -0.0179 1.74 0.992 NA 0.995 logistic 1530 3 0.992 1
Odoribacter_splanchnicus sex Female:diagnosisCD sexFemale:diagnosisCD 0.00313 0.156 0.984 NA 0.991 logistic 1530 757 1 1
Prevotella_SGB48271 sex Female:diagnosisnonIBD sexFemale:diagnosisnonIBD 0.0333 1.65 0.984 NA 0.991 logistic 1530 6 0.984 1
Veillonella_rogosae sex Female:diagnosisUC sexFemale:diagnosisUC -0.031 0.242 0.898 NA 0.935 logistic 1530 207 0.99 1
Waltera_intestinalis sex Male:diagnosisUC sexMale:diagnosisUC 0.00234 0.216 0.991 NA 0.995 logistic 1530 524 1 1
Acidaminococcus_intestini sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 173 NA NA
Akkermansia_muciniphila sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 407 NA NA
Akkermansia_sp_KLE1798 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 70 NA NA
Alistipes_communis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 407 NA NA
Alistipes_dispar sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 83 NA NA
Alistipes_finegoldii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 639 NA NA
Alistipes_onderdonkii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 831 NA NA
Alistipes_putredinis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 873 NA NA
Alistipes_SGB2313 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 73 NA NA
Alistipes_shahii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 673 NA NA
Anaerostipes_hadrus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1130 NA NA
Bacteroides_caccae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 958 NA NA
Bacteroides_caecigallinarum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 21 NA NA
Bacteroides_cellulosilyticus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 433 NA NA
Bacteroides_eggerthii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 409 NA NA
Bacteroides_faecis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 434 NA NA
Bacteroides_finegoldii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 333 NA NA
Bacteroides_fragilis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 787 NA NA
Bacteroides_ilei sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 17 NA NA
Bacteroides_intestinalis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 158 NA NA
Bacteroides_mediterraneensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 13 NA NA
Bacteroides_ovatus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1180 NA NA
Bacteroides_salyersiae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 150 NA NA
Bacteroides_stercoris sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 826 NA NA
Bacteroides_thetaiotaomicron sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1060 NA NA
Bacteroides_uniformis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1240 NA NA
Bacteroides_xylanisolvens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 959 NA NA
Barnesiella_intestinihominis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 431 NA NA
Bifidobacterium_adolescentis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 427 NA NA
Bifidobacterium_longum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 843 NA NA
Bilophila_wadsworthia sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 764 NA NA
Blautia_faecis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1120 NA NA
Blautia_obeum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 899 NA NA
Blautia_wexlerae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1300 NA NA
Butyrivibrio_crossotus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 43 NA NA
Candidatus_Cibionibacter_quicibialis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 933 NA NA
Clostridiaceae_bacterium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1110 NA NA
Clostridiaceae_bacterium_Marseille_Q4149 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 181 NA NA
Clostridiales_bacterium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 985 NA NA
Clostridium_fessum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 926 NA NA
Clostridium_leptum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 652 NA NA
Clostridium_sp_1001270H_150608_G6 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 141 NA NA
Clostridium_sp_AF20_17LB sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 654 NA NA
Clostridium_sp_AF34_10BH sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 960 NA NA
Clostridium_sp_AF36_4 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 568 NA NA
Clostridium_sp_AM22_11AC sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 730 NA NA
Clostridium_sp_AM49_4BH sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 344 NA NA
Clostridium_sp_AT4 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 528 NA NA
Clostridium_symbiosum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 539 NA NA
Collinsella_aerofaciens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 698 NA NA
Collinsella_SGB14861 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 593 NA NA
Coprococcus_comes sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 759 NA NA
Coprococcus_eutactus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 177 NA NA
Dialister_invisus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 726 NA NA
Dorea_longicatena sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1020 NA NA
Dysgonomonas_mossii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 31 NA NA
Dysosmobacter_sp_BX15 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 621 NA NA
Dysosmobacter_welbionis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1190 NA NA
Eisenbergiella_massiliensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 417 NA NA
Enterocloster_bolteae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 866 NA NA
Enterocloster_clostridioformis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 312 NA NA
Escherichia_coli sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 707 NA NA
Eubacterium_rectale sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1210 NA NA
Eubacterium_siraeum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 565 NA NA
Eubacterium_ventriosum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 520 NA NA
Faecalibacterium_prausnitzii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1370 NA NA
Faecalibacterium_SGB15315 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 619 NA NA
Faecalibacterium_SGB15346 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 743 NA NA
Firmicutes_bacterium_AF16_15 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 827 NA NA
Flavonifractor_plautii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1220 NA NA
Fusicatenibacter_saccharivorans sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1120 NA NA
Gemmiger_formicilis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 472 NA NA
GGB1266_SGB1699 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 84 NA NA
GGB1543_SGB2126 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 42 NA NA
GGB1549_SGB2133 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 46 NA NA
GGB16040_SGB9347 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 114 NA NA
GGB1680_SGB2312 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 12 NA NA
GGB28645_SGB41268 sex Male:diagnosisCD sexMale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 3 NA NA
GGB3175_SGB4191 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 154 NA NA
GGB3267_SGB4317 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 54 NA NA
GGB3277_SGB4327 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 152 NA NA
GGB3278_SGB4328 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 179 NA NA
GGB3304_SGB4367 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 155 NA NA
GGB33469_SGB15236 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 293 NA NA
GGB33512_SGB15201 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 121 NA NA
GGB3478_SGB14857 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 16 NA NA
GGB3746_SGB5089 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 651 NA NA
GGB4237_SGB5728 sex Male:diagnosisCD sexMale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 NA NA
GGB51647_SGB4348 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 123 NA NA
GGB58485_SGB80143 sex Male:diagnosisCD sexMale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 14 NA NA
GGB6601_SGB9333 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 69 NA NA
GGB781_SGB1024 sex Male:diagnosisCD sexMale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 18 NA NA
GGB9342_SGB14306 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 92 NA NA
GGB9453_SGB14844 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 222 NA NA
GGB9480_SGB14874 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 332 NA NA
GGB9708_SGB15234 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 282 NA NA
GGB9713_SGB15249 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 329 NA NA
Haemophilus_parainfluenzae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 674 NA NA
Hungatella_hathewayi sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 451 NA NA
Klebsiella_pneumoniae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 119 NA NA
Lachnospira_eligens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 929 NA NA
Lachnospira_pectinoschiza sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 500 NA NA
Lachnospira_sp_NSJ_43 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 296 NA NA
Lacrimispora_amygdalina sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 865 NA NA
Lacrimispora_celerecrescens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 756 NA NA
Lactobacillus_acidophilus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 26 NA NA
Odoribacter_splanchnicus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 757 NA NA
Oscillibacter_sp_ER4 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 458 NA NA
Oscillospiraceae_bacterium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 81 NA NA
Parabacteroides_distasonis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1140 NA NA
Parabacteroides_merdae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 826 NA NA
Paraprevotella_clara sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 178 NA NA
Parasutterella_excrementihominis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 699 NA NA
Parasutterella_SGB9260 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 269 NA NA
Phascolarctobacterium_faecium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 503 NA NA
Phascolarctobacterium_succinatutens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 125 NA NA
Phocaeicola_coprocola sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 101 NA NA
Phocaeicola_dorei sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 769 NA NA
Phocaeicola_massiliensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 396 NA NA
Phocaeicola_plebeius sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 127 NA NA
Phocaeicola_sartorii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 424 NA NA
Phocaeicola_vulgatus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1290 NA NA
Prevotella_copri_clade_A sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 289 NA NA
Prevotella_copri_clade_B sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 40 NA NA
Prevotella_copri_clade_C sex Male:diagnosisCD sexMale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 16 NA NA
Prevotella_copri_clade_E sex Male:diagnosisCD sexMale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 38 NA NA
Prevotella_marseillensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 18 NA NA
Prevotella_SGB48271 sex Male:diagnosisCD sexMale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 6 NA NA
Prevotella_sp_885 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 69 NA NA
Prevotella_stercorea sex Male:diagnosisCD sexMale:diagnosisCD NA NA NA contrasts can be applied only to factors with 2 or more levels NA LM 1530 40 NA NA
Proteus_mirabilis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 100 NA NA
Rikenellaceae_bacterium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 67 NA NA
Roseburia_faecis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 922 NA NA
Roseburia_hominis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 876 NA NA
Roseburia_intestinalis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 842 NA NA
Roseburia_inulinivorans sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 951 NA NA
Roseburia_sp_AF02_12 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 363 NA NA
Ruminococcus_bicirculans sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 678 NA NA
Ruminococcus_bromii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 429 NA NA
Ruminococcus_gnavus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 767 NA NA
Ruminococcus_lactaris sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 379 NA NA
Ruminococcus_sp_BSD2780120874_150323_B10 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 90 NA NA
Ruminococcus_torques sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 1090 NA NA
Ruthenibacterium_lactatiformans sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 797 NA NA
Sutterella_wadsworthensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 536 NA NA
Tyzzerella_nexilis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 188 NA NA
Veillonella_dispar sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 526 NA NA
Veillonella_parvula sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 547 NA NA
Veillonella_rogosae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 207 NA NA
Vescimonas_coprocola sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 599 NA NA
Waltera_intestinalis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN LM 1530 524 NA NA
Acidaminococcus_intestini sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 173 NA NA
Akkermansia_muciniphila sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 407 NA NA
Akkermansia_sp_KLE1798 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 70 NA NA
Alistipes_communis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 407 NA NA
Alistipes_dispar sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 83 NA NA
Alistipes_finegoldii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 639 NA NA
Alistipes_onderdonkii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 831 NA NA
Alistipes_putredinis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 873 NA NA
Alistipes_SGB2313 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 73 NA NA
Alistipes_shahii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 673 NA NA
Anaerostipes_hadrus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1130 NA NA
Bacteroides_caccae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 958 NA NA
Bacteroides_caecigallinarum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 21 NA NA
Bacteroides_cellulosilyticus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 433 NA NA
Bacteroides_eggerthii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 409 NA NA
Bacteroides_faecis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 434 NA NA
Bacteroides_finegoldii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 333 NA NA
Bacteroides_fragilis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 787 NA NA
Bacteroides_ilei sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 17 NA NA
Bacteroides_intestinalis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 158 NA NA
Bacteroides_mediterraneensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 13 NA NA
Bacteroides_ovatus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1180 NA NA
Bacteroides_salyersiae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 150 NA NA
Bacteroides_stercoris sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 826 NA NA
Bacteroides_thetaiotaomicron sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1060 NA NA
Bacteroides_uniformis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1240 NA NA
Bacteroides_xylanisolvens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 959 NA NA
Barnesiella_intestinihominis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 431 NA NA
Bifidobacterium_adolescentis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 427 NA NA
Bifidobacterium_longum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 843 NA NA
Bilophila_wadsworthia sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 764 NA NA
Blautia_faecis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1120 NA NA
Blautia_obeum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 899 NA NA
Blautia_wexlerae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1300 NA NA
Butyrivibrio_crossotus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 43 NA NA
Candidatus_Cibionibacter_quicibialis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 933 NA NA
Clostridiaceae_bacterium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1110 NA NA
Clostridiaceae_bacterium_Marseille_Q4149 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 181 NA NA
Clostridiales_bacterium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 985 NA NA
Clostridium_fessum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 926 NA NA
Clostridium_leptum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 652 NA NA
Clostridium_sp_1001270H_150608_G6 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 141 NA NA
Clostridium_sp_AF20_17LB sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 654 NA NA
Clostridium_sp_AF34_10BH sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 960 NA NA
Clostridium_sp_AF36_4 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 568 NA NA
Clostridium_sp_AM22_11AC sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 730 NA NA
Clostridium_sp_AM49_4BH sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 344 NA NA
Clostridium_sp_AT4 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 528 NA NA
Clostridium_symbiosum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 539 NA NA
Collinsella_aerofaciens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 698 NA NA
Collinsella_SGB14861 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 593 NA NA
Coprococcus_comes sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 759 NA NA
Coprococcus_eutactus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 177 NA NA
Dialister_invisus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 726 NA NA
Dorea_longicatena sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1020 NA NA
Dysgonomonas_mossii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 31 NA NA
Dysosmobacter_sp_BX15 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 621 NA NA
Dysosmobacter_welbionis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1190 NA NA
Eisenbergiella_massiliensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 417 NA NA
Enterocloster_bolteae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 866 NA NA
Enterocloster_clostridioformis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 312 NA NA
Escherichia_coli sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 707 NA NA
Eubacterium_rectale sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1210 NA NA
Eubacterium_siraeum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 565 NA NA
Eubacterium_ventriosum sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 520 NA NA
Faecalibacterium_prausnitzii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1370 NA NA
Faecalibacterium_SGB15315 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 619 NA NA
Faecalibacterium_SGB15346 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 743 NA NA
Firmicutes_bacterium_AF16_15 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 827 NA NA
Flavonifractor_plautii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1220 NA NA
Fusicatenibacter_saccharivorans sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1120 NA NA
Gemmiger_formicilis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 472 NA NA
GGB1266_SGB1699 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 84 NA NA
GGB1543_SGB2126 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 42 NA NA
GGB1549_SGB2133 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 46 NA NA
GGB16040_SGB9347 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 114 NA NA
GGB1680_SGB2312 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 12 NA NA
GGB28645_SGB41268 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 3 NA NA
GGB3175_SGB4191 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 154 NA NA
GGB3267_SGB4317 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 54 NA NA
GGB3277_SGB4327 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 152 NA NA
GGB3278_SGB4328 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 179 NA NA
GGB3304_SGB4367 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 155 NA NA
GGB33469_SGB15236 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 293 NA NA
GGB33512_SGB15201 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 121 NA NA
GGB3478_SGB14857 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 16 NA NA
GGB3746_SGB5089 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 651 NA NA
GGB4237_SGB5728 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 6 NA NA
GGB51647_SGB4348 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 123 NA NA
GGB58485_SGB80143 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 14 NA NA
GGB6601_SGB9333 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 69 NA NA
GGB781_SGB1024 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 18 NA NA
GGB9342_SGB14306 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 92 NA NA
GGB9453_SGB14844 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 222 NA NA
GGB9480_SGB14874 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 332 NA NA
GGB9708_SGB15234 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 282 NA NA
GGB9713_SGB15249 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 329 NA NA
Haemophilus_parainfluenzae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 674 NA NA
Hungatella_hathewayi sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 451 NA NA
Klebsiella_pneumoniae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 119 NA NA
Lachnospira_eligens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 929 NA NA
Lachnospira_pectinoschiza sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 500 NA NA
Lachnospira_sp_NSJ_43 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 296 NA NA
Lacrimispora_amygdalina sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 865 NA NA
Lacrimispora_celerecrescens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 756 NA NA
Lactobacillus_acidophilus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 26 NA NA
Odoribacter_splanchnicus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 757 NA NA
Oscillibacter_sp_ER4 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 458 NA NA
Oscillospiraceae_bacterium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 81 NA NA
Parabacteroides_distasonis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1140 NA NA
Parabacteroides_merdae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 826 NA NA
Paraprevotella_clara sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 178 NA NA
Parasutterella_excrementihominis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 699 NA NA
Parasutterella_SGB9260 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 269 NA NA
Phascolarctobacterium_faecium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 503 NA NA
Phascolarctobacterium_succinatutens sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 125 NA NA
Phocaeicola_coprocola sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 101 NA NA
Phocaeicola_dorei sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 769 NA NA
Phocaeicola_massiliensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 396 NA NA
Phocaeicola_plebeius sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 127 NA NA
Phocaeicola_sartorii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 424 NA NA
Phocaeicola_vulgatus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1290 NA NA
Prevotella_copri_clade_A sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 289 NA NA
Prevotella_copri_clade_B sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 40 NA NA
Prevotella_copri_clade_C sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 16 NA NA
Prevotella_copri_clade_E sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 38 NA NA
Prevotella_marseillensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 18 NA NA
Prevotella_SGB48271 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 6 NA NA
Prevotella_sp_885 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 69 NA NA
Prevotella_stercorea sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 40 NA NA
Proteus_mirabilis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 100 NA NA
Rikenellaceae_bacterium sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 67 NA NA
Roseburia_faecis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 922 NA NA
Roseburia_hominis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 876 NA NA
Roseburia_intestinalis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 842 NA NA
Roseburia_inulinivorans sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 951 NA NA
Roseburia_sp_AF02_12 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 363 NA NA
Ruminococcus_bicirculans sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 678 NA NA
Ruminococcus_bromii sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 429 NA NA
Ruminococcus_gnavus sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 767 NA NA
Ruminococcus_lactaris sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 379 NA NA
Ruminococcus_sp_BSD2780120874_150323_B10 sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 90 NA NA
Ruminococcus_torques sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 1090 NA NA
Ruthenibacterium_lactatiformans sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 797 NA NA
Sutterella_wadsworthensis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 536 NA NA
Tyzzerella_nexilis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 188 NA NA
Veillonella_dispar sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 526 NA NA
Veillonella_parvula sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 547 NA NA
Veillonella_rogosae sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 207 NA NA
Vescimonas_coprocola sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 599 NA NA
Waltera_intestinalis sex Male:diagnosisCD sexMale:diagnosisCD NaN NaN NaN Fitting error (NA p-value returned from fitting procedure) NaN logistic 1530 524 NA NA

In the model above, we have specified an interaction between sex and diagnosis with sex*diagnosis. Since diagnosis has 3 levels itself (nonIBD, UC, CD), this will produce five terms (name column) for each feature:

  • diagnosisCD is the difference between female CD and female non-IBD (female non-IBD is the baseline)
  • diagnosisUC is the difference between female UC and female non-IBD
  • sexMale is the difference between male non-IBD and female non-IBD
  • sexMale:diagnosisCD (the interaction of male and diagnosisCD) is the difference-in-differences between CD versus non-IBD in males versus females, a measure of whether CD affects males differently from females. That is, given the difference between non-IBD and CD in males and the difference between non-IBD and CD in females, the sexMale:diagnosisCD coefficient is the difference between the two differences.
  • sexMale:diagnosisUC (the interaction of male and diagnosisUC`) is the difference-in-differences between UC versus non-IBD in males versus females, a measure of whether UC affects males differently from females.

4.4 Level contrasts

Another feature of MaAsLin 3 is the ability to test for level-versus-level differences in ordered predictors. Ordered predictors can include metadata like cancer stage, consumption frequency of a dietary factor, or dosage group. Here, we assess how microbial abundances and prevalences are associated with eating red meat by including ordered(red_meat) in the formula. This will perform a contrast test of whether there is a difference between each pair of subsequent levels (e.g., “Yesterday, 3 or more times” versus “Yesterday, 1 to 2 times”) rather than whether there are differences between the levels and the baseline (e.g., “Yesterday, 3 or more times” versus “Not in the last 7 days”).

# Put the red meat consumption responses in order
metadata <- metadata %>%
  mutate(red_meat = ifelse(red_meat == 'No, I did not consume these products in the last 7 days',
                           'Not in the last 7 days', 
                           red_meat) %>%
           factor(levels = c('Not in the last 7 days',
                               'Within the past 4 to 7 days', 
                               'Within the past 2 to 3 days',
                               'Yesterday, 1 to 2 times',
                               'Yesterday, 3 or more times'))
         )

# Create the model with only non-IBD subjects
param_list <- list(input_data = taxa_table, 
                   input_metadata = metadata[metadata$diagnosis == 'nonIBD',],
                   output = 'ordered_outputs', 
                   formula = '~ ordered(red_meat) + antibiotics + age + reads',
                   plot_summary_plot = T,
                   plot_associations = T,
                   heatmap_vars = c('red_meat Within the past 4 to 7 days', 
                                       'red_meat Within the past 2 to 3 days',
                                       'red_meat Yesterday, 1 to 2 times',
                                       'red_meat Yesterday, 3 or more times'),
                   max_pngs = 30)

fit_out <- maaslin3(param_list)

If we look at the resulting heatmap, we can identify the Alistipes shahii prevalence association as potentially interesting since it increases in prevalence with more meat consumption in all but one level-versus-level comparison.

feature metadata value name coef stderr pval_individual error qval_individual model N N.not.zero pval_joint qval_joint
Alistipes_shahii red_meat Within the past 4 to 7 days red_meatWithin the past 4 to 7 days 1.47 0.353 3.16e-05 NA 0.000701 logistic 405 266 6.31e-05 0.00113
Alistipes_shahii red_meat Within the past 2 to 3 days red_meatWithin the past 2 to 3 days -0.67 0.316 0.0341 NA 0.164 logistic 405 266 0.067 0.22
Alistipes_shahii red_meat Yesterday, 1 to 2 times red_meatYesterday, 1 to 2 times 1.07 0.291 0.000241 NA 0.00411 logistic 405 266 0.000483 0.00649
Alistipes_shahii red_meat Yesterday, 3 or more times red_meatYesterday, 3 or more times 3.29 3.83 0.391 NA 0.652 logistic 405 266 0.00677 0.0484

4.5 Group-wise differences

The last feature of MaAsLin 3 highlighted here is the ability to test for group-wise differences in categorical predictors. Group-wise predictors can include metadata like race, country, or consumption frequency of a dietary factor. Here, we test whether there are differences in microbial abundances and prevalences across people with different levels of red meat consumption by including group(red_meat).

param_list <- list(input_data = taxa_table, 
                   input_metadata = metadata[metadata$diagnosis == 'nonIBD',],
                   output = 'group_outputs', 
                   formula = '~ group(red_meat) + antibiotics + age + reads',
                   plot_summary_plot = T,
                   plot_associations = T,
                   heatmap_vars = c('red_meat Within the past 4 to 7 days', 
                                       'red_meat Within the past 2 to 3 days',
                                       'red_meat Yesterday, 1 to 2 times',
                                       'red_meat Yesterday, 3 or more times'),
                   max_pngs = 200)

fit_out <- maaslin3(param_list)

If we look at the same Alistipes shahii association from before, we see that no coefficient or standard error is returned for a group predictor, but the q-value is very low. This corroborates the observation earlier that there are differences in Alistipes shahii prevalence with red meat consumption.

feature metadata value name coef stderr pval_individual error qval_individual model N N.not.zero pval_joint qval_joint
Alistipes_shahii red_meat NA red_meat NA NA 5.86e-09 NA 3.42e-07 logistic 405 266 1.17e-08 5.7e-07

5. Command line

MaAsLin 3 can also be run with a command line interface. For example, the first HMP2 analysis can be performed with:

./R/maaslin3.R inst/extdata/HMP2_taxonomy.tsv inst/extdata/HMP2_metadata.tsv command_line_output  --formula='~ diagnosis + dysbiosis_state + antibiotics + age + reads' --reference='diagnosis,nonIBD;dysbiosis_state,none;antibiotics,No'